Back to Long Tests report for BioC 3.20

This page was generated on 2025-01-18 23:55 -0500 (Sat, 18 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4746
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4489
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4517
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 11/32HostnameOS / ArchCHECK
biodbNci 1.10.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-01-18 09:55 -0500 (Sat, 18 Jan 2025)
git_url: https://git.bioconductor.org/packages/biodbNci
git_branch: RELEASE_3_20
git_last_commit: d666b49
git_last_commit_date: 2024-10-29 11:09:24 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK  
palomino8Windows Server 2022 Datacenter / x64  OK  
merida1macOS 12.7.5 Monterey / x86_64  OK  

CHECK results for biodbNci on palomino8

To the developers/maintainers of the biodbNci package:
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbNci
Version: 1.10.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.10.0.tar.gz
StartedAt: 2025-01-18 16:06:19 -0500 (Sat, 18 Jan 2025)
EndedAt: 2025-01-18 17:25:32 -0500 (Sat, 18 Jan 2025)
EllapsedTime: 4752.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbNci.Rcheck
Warnings: 0

Tests output

biodbNci.Rcheck/tests/testthat.Rout


R version 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbNci)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbNci")
biodb.INFO [2025-01-18 16:07:44.243][biodb::testContext]
biodb.INFO [2025-01-18 16:07:44.245][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-18 16:07:44.247][biodb::testContext] Test context - Generic long tests
biodb.INFO [2025-01-18 16:07:44.248][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-18 16:07:44.249][biodb::testContext]
biodb.INFO [2025-01-18 16:07:44.255][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-18 16:07:44.257][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-18 16:07:44.265][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 16:07:44.266][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-18 16:07:44.267][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-18 16:07:44.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.272][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-18 16:07:44.287][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-18 16:07:44.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.292][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-18 16:07:44.293][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-18 16:07:44.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.297][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-18 16:07:44.298][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-18 16:07:44.300][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-18 16:07:44.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.304][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-18 16:07:44.305][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-18 16:07:44.306][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-18 16:07:44.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.311][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-18 16:07:44.312][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-18 16:07:44.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.316][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-18 16:07:44.317][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-18 16:07:44.318][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-18 16:07:44.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.323][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-18 16:07:44.324][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-18 16:07:44.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.328][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-18 16:07:44.329][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-18 16:07:44.331][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-18 16:07:44.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.335][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-18 16:07:44.336][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-18 16:07:44.337][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-18 16:07:44.339][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-18 16:07:44.340][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-18 16:07:44.341][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-18 16:07:44.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.345][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-18 16:07:44.346][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-18 16:07:44.348][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.351][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-18 16:07:44.352][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-18 16:07:44.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.356][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-18 16:07:44.357][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-18 16:07:44.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.362][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-18 16:07:44.363][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-18 16:07:44.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.367][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-18 16:07:44.369][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-18 16:07:44.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.373][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-18 16:07:44.374][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-18 16:07:44.378][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-18 16:07:44.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.382][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-18 16:07:44.383][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-18 16:07:44.384][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-18 16:07:44.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.391][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-18 16:07:44.425][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.439][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-18 16:07:44.440][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.441][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:07:44.443][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.444][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.445][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.446][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.447][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-18 16:07:44.449][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:07:44.450][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.451][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-18 16:07:44.452][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:07:44.453][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.455][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.456][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 16:07:44.456][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-18 16:07:44.456][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-18 16:07:44.456][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-18 16:07:44.456][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-18 16:07:44.457][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:07:44.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:07:44.462][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.463][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.464][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.465][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.466][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:07:44.467][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:07:44.468][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.470][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.471][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-18 16:07:44.473][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.474][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-18 16:07:44.475][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.477][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:07:44.478][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.479][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.480][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.481][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.482][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-18 16:07:44.484][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:07:44.485][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.486][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-18 16:07:44.487][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:07:44.488][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.490][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.491][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 16:07:44.491][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-18 16:07:44.491][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-18 16:07:44.491][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-18 16:07:44.491][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-18 16:07:44.492][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:07:44.493][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.494][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.496][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:07:44.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.499][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.500][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.501][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:07:44.502][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:07:44.503][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.505][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.506][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-18 16:07:44.508][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.509][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-18 16:07:44.510][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.512][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:07:44.513][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.514][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.515][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.516][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.518][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-18 16:07:44.519][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:07:44.520][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.521][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-18 16:07:44.522][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:07:44.524][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.525][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.526][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.527][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:07:44.528][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.530][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:07:44.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.533][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.534][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.535][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.536][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:07:44.537][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:07:44.538][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.540][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.541][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-18 16:07:44.543][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.544][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-18 16:07:44.545][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.546][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:07:44.548][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.549][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.550][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.551][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.552][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-18 16:07:44.553][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:07:44.555][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.556][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-18 16:07:44.557][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:07:44.558][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.559][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:44.560][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.562][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 16:07:44.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.565][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:07:44.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:44.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:44.568][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:07:44.570][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.571][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:07:44.572][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:07:44.573][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:44.574][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:44.577][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 16:07:44.578][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.677][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-18 16:07:44.681][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-18 16:07:44.683][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-18 16:07:44.684][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-18 16:07:44.686][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-18 16:07:44.687][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-18 16:07:44.689][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-18 16:07:44.690][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-18 16:07:44.692][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-18 16:07:44.694][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-18 16:07:44.695][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-18 16:07:44.697][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-18 16:07:44.698][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-18 16:07:44.700][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-18 16:07:44.701][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-18 16:07:44.703][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-18 16:07:44.704][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-18 16:07:44.706][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-18 16:07:44.708][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-18 16:07:44.709][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-18 16:07:44.711][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-18 16:07:44.712][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-18 16:07:44.714][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-18 16:07:44.715][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-18 16:07:44.717][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-18 16:07:44.718][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-18 16:07:44.720][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-18 16:07:44.722][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-18 16:07:44.723][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-18 16:07:44.725][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-18 16:07:44.726][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-18 16:07:44.728][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-18 16:07:44.729][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-18 16:07:44.731][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-18 16:07:44.732][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-18 16:07:44.734][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-18 16:07:44.736][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-18 16:07:44.737][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-18 16:07:44.739][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-18 16:07:44.740][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-18 16:07:44.742][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-18 16:07:44.743][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-18 16:07:44.745][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-18 16:07:44.746][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-18 16:07:44.748][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-18 16:07:44.750][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-18 16:07:44.751][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-18 16:07:44.753][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-18 16:07:44.754][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-18 16:07:44.756][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-18 16:07:44.757][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-18 16:07:44.759][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-18 16:07:44.761][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-18 16:07:44.762][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-18 16:07:44.764][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-18 16:07:44.765][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-18 16:07:44.767][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-18 16:07:44.768][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-18 16:07:44.770][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-18 16:07:44.772][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-18 16:07:44.773][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-18 16:07:44.775][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-18 16:07:44.776][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-18 16:07:44.778][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-18 16:07:44.779][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-18 16:07:44.781][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-18 16:07:44.782][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-18 16:07:44.784][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-18 16:07:44.786][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-18 16:07:44.787][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-18 16:07:44.789][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-18 16:07:44.790][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-18 16:07:44.792][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-18 16:07:44.793][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-18 16:07:44.795][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-18 16:07:44.796][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-18 16:07:44.798][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-18 16:07:44.800][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-18 16:07:44.801][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-18 16:07:44.803][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-18 16:07:44.804][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-18 16:07:44.806][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-18 16:07:44.807][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-18 16:07:44.840][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-18 16:07:44.842][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-18 16:07:44.845][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 16:07:44.847][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.849][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 16:07:44.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:44.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:44.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:44.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:44.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:44.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 16:07:44.989][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-01-18 16:07:44.998][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-01-18 16:07:45.000][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:45.001][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-01-18 16:07:45.002][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:45.004][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 16:07:45.005][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:45.006][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-01-18 16:07:45.007][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:45.008][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 16:07:45.010][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-01-18 16:07:45.011][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 16:07:45.012][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:45.013][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-01-18 16:07:45.014][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-01-18 16:07:45.015][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-01-18 16:07:45.017][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-18 16:07:45.018][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:45.019][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-18 16:07:45.020][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:45.021][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:45.022][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 16:07:45.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 16:07:45.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 16:07:45.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 16:07:45.027][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-01-18 16:07:45.027][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-01-18 16:07:45.027][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-01-18 16:07:45.027][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-01-18 16:07:45.028][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 16:07:45.029][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 16:07:45.030][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-18 16:07:45.031][self$setPropertyValue]
biodb.DEBUG[2025-01-18 16:07:45.037][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-01-18 16:07:45.057][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-01-18 16:07:45.059][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-01-18 16:07:45.063][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-01-18 16:07:45.096][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-01-18 16:07:45.099][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-18 16:07:45.100][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-18 16:07:45.102][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-01-18 16:07:45.104][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-01-18 16:07:45.105][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-01-18 16:07:45.106][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-01-18 16:07:45.116][biodb::testThat]
biodb.INFO [2025-01-18 16:07:45.117][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-18 16:07:45.118][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 16:07:45.120][biodb::testThat]
biodb.TRACE[2025-01-18 16:07:45.124][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-749674-content.sdf".
biodb.DEBUG[2025-01-18 16:07:45.126][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-01-18 16:07:45.129][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-01-18 16:07:45.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-18 16:07:45.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:45.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:45.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:45.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:45.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:45.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-18 16:07:45.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.253][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.257][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.267][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 16:07:45.336][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 749674.
biodb.TRACE[2025-01-18 16:07:45.339][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.344][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.349][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 16:07:45.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 16:07:45.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.353][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 16:07:45.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 16:07:45.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.394][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.439][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.444][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.449][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.476][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.479][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.504][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.509][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.510][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.512][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.541][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.542][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.545][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.569][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.573][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.575][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.577][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.603][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.609][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.611][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.612][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.631][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.633][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.635][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.641][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.642][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.645][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.652][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.654][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.661][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.664][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.670][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.671][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.673][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.690][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/testref/entry-nci.cactus-750690-content.sdf".
biodb.DEBUG[2025-01-18 16:07:45.718][biodb$getFactory()$createEntryFromCo ...] Creating NCI CACTUS entries from 1 content(s).
biodb.DEBUG[2025-01-18 16:07:45.720][biodb$getFactory()$createEntryFromCo ...] Parsing 1 NCI CACTUS entries.
biodb.DEBUG[2025-01-18 16:07:45.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-18 16:07:45.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 16:07:45.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 16:07:45.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 16:07:45.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 16:07:45.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-18 16:07:45.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-18 16:07:45.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.772][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:45.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:45.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.777][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:45.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:45.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.782][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.787][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:45.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:45.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:45.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.807][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.826][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.830][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:45.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:45.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:45.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:45.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.846][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:45.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.856][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.861][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.870][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.899][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 16:07:45.904][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 750690.
biodb.TRACE[2025-01-18 16:07:45.926][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.931][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 16:07:45.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 16:07:45.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 16:07:45.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.940][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 16:07:45.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 16:07:45.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.956][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:45.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:45.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:45.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:45.996][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:45.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.001][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:46.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:46.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.006][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:46.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 16:07:46.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:46.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:46.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:46.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:46.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:46.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:46.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.042][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:46.044][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:46.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.046][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:46.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:46.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.061][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.066][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.071][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.075][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.077][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.079][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.080][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:46.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:46.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:46.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:46.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:46.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:46.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.113][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:46.114][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:46.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.116][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.117][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:46.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:46.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.132][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:46.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:46.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:46.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.141][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:46.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:46.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.146][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:46.147][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:46.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.149][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.151][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:46.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:46.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.179][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.180][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.182][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.197][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:46.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:46.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:46.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:46.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:46.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:46.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:46.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.215][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:46.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:46.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.248][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.249][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.251][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.267][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 16:07:46.273][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 16:07:46.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.275][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.281][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.282][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 16:07:46.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.285][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.291][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 16:07:46.292][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 16:07:46.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.294][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 16:07:46.301][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 16:07:46.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.304][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 16:07:46.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.313][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.319][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.320][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 16:07:46.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.323][ef$get] fields variable is a list.
biodb.TRACE[2025-01-18 16:07:46.329][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-18 16:07:46.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 16:07:46.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-18 16:07:46.332][ef$get] fields variable is a list.
biodb.INFO [2025-01-18 16:07:46.343][biodb::testThat]
biodb.INFO [2025-01-18 16:07:46.344][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-18 16:07:46.345][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 16:07:46.346][biodb::testThat]
biodb.DEBUG[2025-01-18 16:07:46.349][private$loadEntries] Creating entries from ids [2]: "749674, 750690".
biodb.DEBUG[2025-01-18 16:07:46.355][conn$getEntryContent] Get NCI CACTUS entry content(s) for 2 id(s)...
biodb.INFO [2025-01-18 16:07:46.361][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427" for "nci.cactus-8efc65070d01b214e760b1d4932ee427".
biodb.DEBUG[2025-01-18 16:07:46.363][self$isDownloaded] Database nci.cactus has not yet been downloaded.
biodb.INFO [2025-01-18 16:07:46.364][self$download] Downloading whole database of nci.cactus.
biodb.INFO [2025-01-18 16:07:46.365][private$doDownload] Downloading NCI CACTUS database at "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz" ...
biodb.DEBUG[2025-01-18 16:07:46.368][sched$downloadFile] Downloading file "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
trying URL 'https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz'
Content type 'application/x-gzip' length 206737123 bytes (197.2 MB)
==================================================
downloaded 197.2 MB

biodb.TRACE[2025-01-18 16:07:47.565][cch$addFilesToCache] Moving files to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp\nci.cactus175c1d5b616bgz".
biodb.TRACE[2025-01-18 16:07:47.567][private$doAddFilesToCache] Destination files are [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/download.gz".
biodb.DEBUG[2025-01-18 16:07:47.702][cch$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-18 16:07:47.705][self$getDownloadPath] Download path of nci.cactus is "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/download.gz".
biodb.DEBUG[2025-01-18 16:07:47.707][self$download] Downloading of nci.cactus completed.
biodb.TRACE[2025-01-18 16:07:47.710][self$addFilesToCache] Moving files to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp\marker175c723e432amarker".
biodb.TRACE[2025-01-18 16:07:47.711][private$doAddFilesToCache] Destination files are [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/downloaded.marker".
biodb.DEBUG[2025-01-18 16:07:47.756][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-18 16:07:47.759][self$isDownloaded] Database nci.cactus has already been downloaded.
biodb.INFO [2025-01-18 16:07:47.761][self$download] Extract whole database of nci.cactus.
biodb.INFO [2025-01-18 16:07:47.762][private$doExtractDownload] Extracting content of downloaded biodbNci, a library for connecting to the National Cancer Institute (USA) CACTUS Database....
biodb.DEBUG[2025-01-18 16:07:47.764][self$getDownloadPath] Download path of nci.cactus is "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/download.gz".
biodb.DEBUG[2025-01-18 16:09:48.712][private$doExtractDownload] Delete existing entry files in cache system.
biodb.DEBUG[2025-01-18 16:09:48.715][private$doExtractDownload] Extract single entries from downloaded file "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp/cactus_rdfs", into "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp".
biodb.TRACE[2025-01-18 17:08:39.671][self$addFilesToCache] Moving files to cache [265242]: "C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_1.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_2.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_3.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_4.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_5.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_6.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_7.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_8.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_9.txt, C:\Users\biocbuild\AppData\Local\R\cache\R\biodb\tmp/entry_10.txt, ...".
biodb.TRACE[2025-01-18 17:08:40.416][private$doAddFilesToCache] Destination files are [265242]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/1.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/2.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/3.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/4.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/5.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/6.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/7.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/8.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/9.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/10.sdf, ...".
biodb.DEBUG[2025-01-18 17:25:27.919][self$addFilesToCache] Done adding files.
biodb.DEBUG[2025-01-18 17:25:27.926][private$doExtractDownload] Delete extracted database.
biodb.TRACE[2025-01-18 17:25:27.959][self$addFilesToCache] Moving files to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/tmp\marker175c36e91614marker".
biodb.TRACE[2025-01-18 17:25:27.965][private$doAddFilesToCache] Destination files are [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/extracted.marker".
biodb.DEBUG[2025-01-18 17:25:27.976][self$addFilesToCache] Done adding files.
biodb.TRACE[2025-01-18 17:25:27.982][cch$loadFileContent] Trying to load 2 files from cache: [2]: "749674, 750690".
biodb.TRACE[2025-01-18 17:25:27.988][cch$loadFileContent] file.exist = [2]: "TRUE, TRUE".
biodb.TRACE[2025-01-18 17:25:28.022][loadFileContents] Loaded 2 files from cache: [2]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/749674.sdf, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/nci.cactus-8efc65070d01b214e760b1d4932ee427/750690.sdf".
biodb.DEBUG[2025-01-18 17:25:28.030][conn$getEntryContent] 2 NCI CACTUS entry content(s) loaded from cache.
biodb.DEBUG[2025-01-18 17:25:28.057][self$createEntryFromContent] Creating NCI CACTUS entries from 2 content(s).
biodb.DEBUG[2025-01-18 17:25:28.068][self$createEntryFromContent] Parsing 2 NCI CACTUS entries.
biodb.DEBUG[2025-01-18 17:25:28.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-18 17:25:28.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:28.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:28.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:28.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:28.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:28.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-18 17:25:28.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.316][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:25:28.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:25:28.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.332][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:25:28.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:25:28.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:25:28.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:25:28.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:25:28.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:25:28.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.425][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.453][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.475][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 17:25:28.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-18 17:25:28.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:28.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:28.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:28.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:28.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:28.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-18 17:25:28.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.583][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:25:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:25:28.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.589][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-18 17:25:28.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-18 17:25:28.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.597][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:25:28.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:25:28.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-18 17:25:28.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-18 17:25:28.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-01-18 17:25:28.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.638][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.651][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-18 17:25:28.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-18 17:25:28.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.672][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:25:28.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:25:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.679][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-18 17:25:28.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-18 17:25:28.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.686][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.693][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-18 17:25:28.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.706][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.718][self$getBiodb()$getEntryFields()$get] Asked field names are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nci.cactus.id.
biodb.TRACE[2025-01-18 17:25:28.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-18 17:25:28.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-18 17:25:28.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-18 17:25:28.784][self$createEntryFromContent] Accession numbers: 749674, 750690.
biodb.TRACE[2025-01-18 17:25:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-18 17:25:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-18 17:25:28.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-18 17:25:28.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-18 17:25:28.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-18 17:25:28.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-18 17:25:28.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-18 17:25:28.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-18 17:25:28.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-18 17:25:28.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-18 17:25:28.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:28.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-18 17:25:28.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-18 17:25:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:28.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-18 17:25:28.855][biodb::testThat]
biodb.INFO [2025-01-18 17:25:28.857][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-18 17:25:28.859][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:28.860][biodb::testThat]
biodb.INFO [2025-01-18 17:25:28.878][biodb::testThat]
biodb.INFO [2025-01-18 17:25:28.879][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-18 17:25:28.881][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:28.882][biodb::testThat]
biodb.WARN [2025-01-18 17:25:28.950][self$searchForEntries] This database is not searchable by field "name".
biodb.WARN [2025-01-18 17:25:28.981][self$searchForEntries] This database is not searchable by field "name".
biodb.INFO [2025-01-18 17:25:28.995][biodb::testThat]
biodb.INFO [2025-01-18 17:25:28.996][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-18 17:25:28.998][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:29.000][biodb::testThat]
biodb.TRACE[2025-01-18 17:25:29.057][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.064][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.070][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 17:25:29.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 17:25:29.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.076][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 17:25:29.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 17:25:29.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.126][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.133][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-18 17:25:29.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.140][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-18 17:25:29.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-18 17:25:29.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-18 17:25:29.147][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-18 17:25:29.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-18 17:25:29.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-18 17:25:29.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-18 17:25:29.168][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.170][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-18 17:25:29.171][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:29.173][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.187][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.188][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-18 17:25:29.190][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:29.192][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.205][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.206][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-18 17:25:29.209][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:29.211][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.222][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.223][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-18 17:25:29.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-18 17:25:29.226][biodb::testThat]
biodb.INFO [2025-01-18 17:25:29.238][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-18 17:25:29.241][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-01-18 17:25:29.243][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-01-18 17:25:29.245][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-18 17:25:29.247][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:29.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:29.250][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.255][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-18 17:25:29.289][biodb::testContext]
biodb.INFO [2025-01-18 17:25:29.291][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-18 17:25:29.292][biodb::testContext] Test context - Example long tests
biodb.INFO [2025-01-18 17:25:29.294][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-18 17:25:29.296][biodb::testContext]
biodb.INFO [2025-01-18 17:25:29.314][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-18 17:25:29.318][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-18 17:25:29.347][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 17:25:29.349][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-18 17:25:29.350][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-18 17:25:29.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.356][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-18 17:25:29.359][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-18 17:25:29.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.364][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-18 17:25:29.366][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-18 17:25:29.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.371][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-18 17:25:29.373][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-18 17:25:29.375][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-18 17:25:29.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.381][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-18 17:25:29.382][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-18 17:25:29.384][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-18 17:25:29.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.389][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-18 17:25:29.391][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-18 17:25:29.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.397][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-18 17:25:29.398][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-18 17:25:29.400][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-18 17:25:29.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.405][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-18 17:25:29.407][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-18 17:25:29.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.412][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-18 17:25:29.413][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-18 17:25:29.415][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-18 17:25:29.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.421][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-18 17:25:29.422][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-18 17:25:29.424][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-18 17:25:29.425][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-18 17:25:29.426][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-18 17:25:29.428][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-18 17:25:29.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.433][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-18 17:25:29.435][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-18 17:25:29.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.441][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-18 17:25:29.442][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-18 17:25:29.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.448][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-18 17:25:29.450][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-18 17:25:29.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.456][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-18 17:25:29.457][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-18 17:25:29.459][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.463][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-18 17:25:29.465][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-18 17:25:29.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.471][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-18 17:25:29.473][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-18 17:25:29.477][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-18 17:25:29.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.483][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-18 17:25:29.484][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-18 17:25:29.486][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-18 17:25:29.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.493][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-18 17:25:29.501][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.503][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-18 17:25:29.505][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.506][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 17:25:29.508][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.509][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.511][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.512][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.514][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-18 17:25:29.515][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 17:25:29.517][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.519][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-18 17:25:29.520][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 17:25:29.522][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.523][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.525][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 17:25:29.525][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-18 17:25:29.525][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-18 17:25:29.525][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-18 17:25:29.525][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-18 17:25:29.527][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 17:25:29.528][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.530][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.531][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 17:25:29.533][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.534][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.535][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.537][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.538][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 17:25:29.540][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 17:25:29.541][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.543][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.545][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-18 17:25:29.547][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.549][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-18 17:25:29.550][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.552][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 17:25:29.554][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.555][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.557][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.558][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.559][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-18 17:25:29.561][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 17:25:29.562][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.564][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-18 17:25:29.565][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 17:25:29.567][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.568][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.569][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-18 17:25:29.569][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-18 17:25:29.569][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-18 17:25:29.569][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-18 17:25:29.569][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-18 17:25:29.571][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 17:25:29.572][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.574][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.575][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 17:25:29.577][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.578][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.580][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.581][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.582][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 17:25:29.584][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 17:25:29.585][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.586][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.588][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-18 17:25:29.590][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.592][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-18 17:25:29.593][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.594][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 17:25:29.596][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.597][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.599][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.600][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.602][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-18 17:25:29.603][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 17:25:29.605][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.606][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-18 17:25:29.608][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 17:25:29.609][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.611][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.612][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.614][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 17:25:29.615][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.618][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 17:25:29.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.622][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.623][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.625][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 17:25:29.626][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 17:25:29.627][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.629][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.630][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-18 17:25:29.633][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.634][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-18 17:25:29.636][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.637][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 17:25:29.639][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.640][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.641][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.643][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.645][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-18 17:25:29.646][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 17:25:29.648][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.649][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-18 17:25:29.651][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 17:25:29.652][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.654][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:29.655][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.656][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-18 17:25:29.658][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.659][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.660][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 17:25:29.662][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:29.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:29.665][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 17:25:29.666][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.667][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 17:25:29.669][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 17:25:29.670][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:29.671][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:29.673][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 17:25:29.675][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.792][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-18 17:25:29.795][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-18 17:25:29.797][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-18 17:25:29.799][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-18 17:25:29.801][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-18 17:25:29.803][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-18 17:25:29.805][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-18 17:25:29.807][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-18 17:25:29.809][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-18 17:25:29.810][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-18 17:25:29.812][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-18 17:25:29.814][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-18 17:25:29.816][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-18 17:25:29.818][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-18 17:25:29.821][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-18 17:25:29.824][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-18 17:25:29.826][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-18 17:25:29.828][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-18 17:25:29.829][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-18 17:25:29.832][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-18 17:25:29.834][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-18 17:25:29.836][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-18 17:25:29.838][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-18 17:25:29.840][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-18 17:25:29.842][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-18 17:25:29.844][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-18 17:25:29.846][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-18 17:25:29.848][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-18 17:25:29.850][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-18 17:25:29.855][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-18 17:25:29.858][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-18 17:25:29.860][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-18 17:25:29.863][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-18 17:25:29.865][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-18 17:25:29.867][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-18 17:25:29.869][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-18 17:25:29.871][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-18 17:25:29.873][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-18 17:25:29.875][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-18 17:25:29.877][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-18 17:25:29.879][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-18 17:25:29.881][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-18 17:25:29.883][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-18 17:25:29.885][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-18 17:25:29.886][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-18 17:25:29.888][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-18 17:25:29.891][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-18 17:25:29.893][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-18 17:25:29.895][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-18 17:25:29.897][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-18 17:25:29.899][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-18 17:25:29.901][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-18 17:25:29.903][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-18 17:25:29.905][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-18 17:25:29.906][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-18 17:25:29.908][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-18 17:25:29.910][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-18 17:25:29.914][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-18 17:25:29.916][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-18 17:25:29.918][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-18 17:25:29.920][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-18 17:25:29.922][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-18 17:25:29.924][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-18 17:25:29.926][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-18 17:25:29.928][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-18 17:25:29.930][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-18 17:25:29.932][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-18 17:25:29.934][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-18 17:25:29.936][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-18 17:25:29.938][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-18 17:25:29.939][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-18 17:25:29.941][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-18 17:25:29.943][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-18 17:25:29.945][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-18 17:25:29.947][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-18 17:25:29.949][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-18 17:25:29.951][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-18 17:25:29.953][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-18 17:25:29.955][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-18 17:25:29.957][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-18 17:25:29.959][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-18 17:25:29.961][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-18 17:25:29.962][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-18 17:25:29.965][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-18 17:25:29.968][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-18 17:25:29.970][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-18 17:25:29.971][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.974][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:29.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:29.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:29.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:29.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:29.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:29.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:29.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:29.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:29.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:29.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:29.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-18 17:25:30.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-18 17:25:30.153][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/biodbNci/definitions.yml".
biodb.DEBUG[2025-01-18 17:25:30.175][self$getDbsInfo()$define] Define connector nci.cactus.
biodb.DEBUG[2025-01-18 17:25:30.178][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:30.179][self$setPropertyValue] Setting property "description" to "National Cancer Institute (USA) CACTUS Database.".
biodb.DEBUG[2025-01-18 17:25:30.181][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:30.182][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-18 17:25:30.183][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:30.185][self$setPropertyValue] Setting property "dwnld.ext" to "gz".
biodb.DEBUG[2025-01-18 17:25:30.186][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:30.188][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-18 17:25:30.189][self$setPropertyValue] Setting property "entry.content.type" to "sdf".
biodb.DEBUG[2025-01-18 17:25:30.191][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-18 17:25:30.192][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:30.193][self$setPropertyValue] Setting property "name" to "NCI CACTUS".
biodb.DEBUG[2025-01-18 17:25:30.195][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "NSC".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "DTP names".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "Standard InChI".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "c("Standard InChIKey", "^InChIKey=(.*)$")".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "Formula".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "Molecular Weight".
biodb.DEBUG[2025-01-18 17:25:30.196][self$setPropertyValue] Setting property "parsing.expr" to "CAS".
biodb.DEBUG[2025-01-18 17:25:30.198][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-18 17:25:30.199][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:30.201][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-18 17:25:30.202][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:30.203][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:30.205][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-18 17:25:30.206][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-18 17:25:30.207][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-18 17:25:30.209][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-18 17:25:30.210][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-01-18 17:25:30.210][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/".
biodb.DEBUG[2025-01-18 17:25:30.210][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/".
biodb.DEBUG[2025-01-18 17:25:30.210][self$setPropertyValue] Setting property "urls" to "https://cactus.nci.nih.gov/download/nci/NCI-Open_2012-05-01.sdf.gz".
biodb.DEBUG[2025-01-18 17:25:30.211][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-18 17:25:30.213][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-18 17:25:30.214][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-18 17:25:30.215][self$setPropertyValue]
biodb.DEBUG[2025-01-18 17:25:30.217][self$getEntryFields()$define] Define field nci.cactus.id.
biodb.DEBUG[2025-01-18 17:25:30.225][super$initialize] Initialize connector nci.cactus.
biodb.DEBUG[2025-01-18 17:25:30.227][super$initialize] Register connector nci.cactus with the request scheduler
biodb.DEBUG[2025-01-18 17:25:30.229][private$bdb$getRequestScheduler()$re ...] Register connector nci.cactus.
biodb.DEBUG[2025-01-18 17:25:30.233][private$addConnectorRules] Create new rule for URL "cactus.nci.nih.gov" of connector "nci.cactus".
biodb.DEBUG[2025-01-18 17:25:30.235][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-18 17:25:30.236][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-18 17:25:30.238][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-01-18 17:25:30.240][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-01-18 17:25:30.242][rule$addConnector] Connector "nci.cactus" is already listed in rule "cactus.nci.nih.gov".
biodb.DEBUG[2025-01-18 17:25:30.243][biodb$getFactory()$createConn] Creating new connector nci.cactus for database class nci.cactus .
biodb.INFO [2025-01-18 17:25:30.245][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-18 17:25:30.246][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector nci.cactus from the request scheduler
biodb.INFO [2025-01-18 17:25:30.248][self$deleteConn] Connector "nci.cactus" deleted.
biodb.DEBUG[2025-01-18 17:25:30.249][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-18 17:25:30.250][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-18 17:25:30.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-18 17:25:30.253][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-18 17:25:30.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-18 17:25:30.256][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-18 17:25:30.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 92 ]
> 
> proc.time()
   user  system elapsed 
1338.42  380.37 4667.89

'R CMD check' output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no biodbNci_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using options '--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error'
* checking for file 'biodbNci/DESCRIPTION' ... OK
* this is package 'biodbNci' version '1.10.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbNci' can be installed ... OK
* used C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... SKIPPED
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... OK
* checking files in 'vignettes' ... SKIPPED
* checking examples ... SKIPPED
* checking for unstated dependencies in 'longtests' ... OK
* checking tests in 'longtests' ...
  Running 'testthat.R'
 OK
* DONE

Status: OK

Installation output

biodbNci.Rcheck/00install.out

* installing *source* package 'biodbNci' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c extractEntries.cpp -o extractEntries.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-100-example.cpp -o test-100-example.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -s -static-libgcc -o biodbNci.dll tmp.def RcppExports.o extractEntries.o test-100-example.o test-runner.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc-longtests/meat/biodbNci.Rcheck/00LOCK-biodbNci/00new/biodbNci/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbNci)