Pierrick Roger
| Snapshot Date: 2025-02-05 13:48 -0500 (Wed, 05 Feb 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 686a27c |
| git_last_commit_date: 2024-10-29 11:04:36 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-02-06 11:43 -0500 (Thu, 06 Feb 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4719 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4480 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" | 4491 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4444 |
| 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 202/2295 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.13.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - 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. |
| Package: biodbChebi |
| Version: 1.13.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.13.0.tar.gz |
| StartedAt: 2025-02-05 18:19:17 -0500 (Wed, 05 Feb 2025) |
| EndedAt: 2025-02-05 18:19:59 -0500 (Wed, 05 Feb 2025) |
| EllapsedTime: 41.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.13.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.13.0’ ** using staged installation ** 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 (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-02-05 18:19:38.567][biodb::testContext]
biodb.INFO [2025-02-05 18:19:38.569][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:38.569][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-02-05 18:19:38.569][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:38.570][biodb::testContext]
biodb.INFO [2025-02-05 18:19:38.572][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:38.573][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:38.576][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:38.576][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 18:19:38.577][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 18:19:38.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.578][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 18:19:38.584][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 18:19:38.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.585][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[2025-02-05 18:19:38.585][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 18:19:38.586][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 18:19:38.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.587][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 18:19:38.587][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 18:19:38.587][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 18:19:38.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.588][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[2025-02-05 18:19:38.588][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 18:19:38.589][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 18:19:38.589][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 18:19:38.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.590][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 18:19:38.590][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 18:19:38.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.591][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[2025-02-05 18:19:38.591][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 18:19:38.591][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 18:19:38.592][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 18:19:38.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.593][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 18:19:38.597][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 18:19:38.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.598][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[2025-02-05 18:19:38.598][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 18:19:38.599][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 18:19:38.599][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 18:19:38.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.600][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:38.600][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 18:19:38.600][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 18:19:38.601][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 18:19:38.601][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 18:19:38.601][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 18:19:38.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.602][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[2025-02-05 18:19:38.602][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 18:19:38.602][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 18:19:38.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.603][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 18:19:38.603][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 18:19:38.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.604][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[2025-02-05 18:19:38.604][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 18:19:38.605][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 18:19:38.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.605][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 18:19:38.606][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 18:19:38.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.606][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[2025-02-05 18:19:38.607][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 18:19:38.607][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 18:19:38.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.608][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:38.608][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 18:19:38.613][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 18:19:38.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.614][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[2025-02-05 18:19:38.614][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 18:19:38.614][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 18:19:38.615][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 18:19:38.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:38.617][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 18:19:38.628][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.633][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 18:19:38.633][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.634][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:38.634][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.634][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.634][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.635][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.635][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:38.635][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:38.635][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.636][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 18:19:38.636][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:38.636][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.636][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:38.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.638][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:38.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.639][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.639][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:38.639][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:38.639][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.640][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.640][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 18:19:38.641][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.641][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:38.641][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.641][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:38.642][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.642][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.642][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.642][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.643][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:38.643][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:38.643][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.643][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:38.644][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:38.645][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:38.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.645][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:38.646][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.646][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.646][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.646][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.647][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:38.647][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:38.647][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.647][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.648][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 18:19:38.648][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.648][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 18:19:38.649][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.649][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:38.649][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.649][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.650][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.650][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.650][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:38.650][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:38.651][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.651][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 18:19:38.651][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:38.651][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.652][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.652][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:38.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.653][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:38.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.654][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.654][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.654][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:38.654][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:38.654][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.655][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.655][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 18:19:38.655][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.656][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:38.656][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.656][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:38.656][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.657][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.657][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.657][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.658][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:38.658][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:38.658][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.658][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 18:19:38.659][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:38.659][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.662][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.662][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.662][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:38.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.663][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:38.663][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.663][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.664][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.664][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.664][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:38.664][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:38.665][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.665][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:38.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:38.667][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.667][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[2025-02-05 18:19:38.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.668][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[2025-02-05 18:19:38.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.669][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[2025-02-05 18:19:38.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.670][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[2025-02-05 18:19:38.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.671][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[2025-02-05 18:19:38.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.673][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[2025-02-05 18:19:38.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.674][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[2025-02-05 18:19:38.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.675][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[2025-02-05 18:19:38.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.676][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[2025-02-05 18:19:38.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.677][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[2025-02-05 18:19:38.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.678][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[2025-02-05 18:19:38.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.679][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[2025-02-05 18:19:38.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.680][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[2025-02-05 18:19:38.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.681][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[2025-02-05 18:19:38.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.682][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[2025-02-05 18:19:38.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.683][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[2025-02-05 18:19:38.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.685][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[2025-02-05 18:19:38.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.686][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[2025-02-05 18:19:38.686][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 18:19:38.688][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 18:19:38.688][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 18:19:38.688][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 18:19:38.689][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:38.689][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 18:19:38.689][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:38.690][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:38.690][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 18:19:38.691][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 18:19:38.691][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:38.691][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 18:19:38.692][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:38.692][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:38.692][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 18:19:38.693][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 18:19:38.693][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 18:19:38.693][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 18:19:38.694][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:38.694][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 18:19:38.695][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 18:19:38.695][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 18:19:38.695][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 18:19:38.696][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 18:19:38.696][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 18:19:38.696][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 18:19:38.697][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 18:19:38.697][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 18:19:38.697][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 18:19:38.698][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 18:19:38.698][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 18:19:38.699][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 18:19:38.699][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 18:19:38.699][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 18:19:38.700][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 18:19:38.700][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 18:19:38.700][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 18:19:38.701][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 18:19:38.701][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 18:19:38.701][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 18:19:38.702][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 18:19:38.702][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 18:19:38.703][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 18:19:38.703][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 18:19:38.703][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 18:19:38.704][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 18:19:38.704][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 18:19:38.704][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 18:19:38.705][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 18:19:38.705][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 18:19:38.705][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 18:19:38.706][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 18:19:38.706][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 18:19:38.706][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 18:19:38.707][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 18:19:38.707][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 18:19:38.708][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 18:19:38.708][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 18:19:38.708][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 18:19:38.709][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 18:19:38.709][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 18:19:38.709][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 18:19:38.710][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 18:19:38.710][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 18:19:38.710][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 18:19:38.711][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 18:19:38.711][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:38.711][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:38.712][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 18:19:38.712][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 18:19:38.713][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 18:19:38.714][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 18:19:38.715][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 18:19:38.715][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 18:19:38.715][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 18:19:38.716][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 18:19:38.716][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 18:19:38.716][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 18:19:38.719][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 18:19:38.720][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 18:19:38.720][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 18:19:38.721][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 18:19:38.721][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 18:19:38.723][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 18:19:38.723][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:38.725][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:38.725][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.725][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.726][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[2025-02-05 18:19:38.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.729][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[2025-02-05 18:19:38.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.730][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[2025-02-05 18:19:38.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.732][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[2025-02-05 18:19:38.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.733][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.DEBUG[2025-02-05 18:19:38.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.735][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[2025-02-05 18:19:38.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.736][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[2025-02-05 18:19:38.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.738][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[2025-02-05 18:19:38.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.739][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[2025-02-05 18:19:38.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.741][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[2025-02-05 18:19:38.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.742][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[2025-02-05 18:19:38.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.744][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[2025-02-05 18:19:38.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.745][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[2025-02-05 18:19:38.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.747][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[2025-02-05 18:19:38.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.749][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[2025-02-05 18:19:38.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.750][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[2025-02-05 18:19:38.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.752][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[2025-02-05 18:19:38.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:38.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.753][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[2025-02-05 18:19:38.754][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:38.757][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 18:19:38.758][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.758][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.758][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:38.759][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.759][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.759][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.759][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 18:19:38.760][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 18:19:38.760][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:38.760][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.760][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:38.761][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:38.762][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 18:19:38.762][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.762][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.762][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:38.763][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:38.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:38.763][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:38.763][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 18:19:38.763][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 18:19:38.764][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:38.764][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:38.764][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:38.764][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 18:19:38.764][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 18:19:38.766][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:38.767][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:38.767][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 18:19:38.768][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:38.768][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:38.769][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:38.779][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 18:19:38.779][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 18:19:38.783][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 18:19:38.785][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 18:19:38.787][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:38.787][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:38.787][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 18:19:38.788][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 18:19:38.791][biodb::testThat]
biodb.INFO [2025-02-05 18:19:38.792][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-02-05 18:19:38.792][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:38.792][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:38.794][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-02-05 18:19:38.794][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:38.796][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:38.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:38.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:38.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:38.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:38.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:38.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:38.805][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[2025-02-05 18:19:38.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.809][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.814][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.815][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.815][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.823][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.824][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.825][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.825][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:38.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:38.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.827][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.827][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:38.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:38.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.828][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.829][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.829][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.830][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.831][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.831][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.833][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:38.833][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.833][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.834][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:38.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.835][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.835][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.835][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.837][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.837][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.837][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.839][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:38.839][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.840][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.840][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:38.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.841][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:38.841][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:38.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.842][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.842][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:38.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:38.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:38.879][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-02-05 18:19:38.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:38.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:38.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:38.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:38.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:38.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.893][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 18:19:38.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 18:19:38.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.894][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 18:19:38.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 18:19:38.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.895][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 18:19:38.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 18:19:38.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.896][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 18:19:38.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 18:19:38.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.929][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.929][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.930][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:38.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:38.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.937][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:38.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.944][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.945][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.945][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.945][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:38.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.950][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.952][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.952][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.953][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:38.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:38.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.962][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.962][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.963][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:38.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.970][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.971][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:38.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.974][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.978][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.978][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.978][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.978][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:38.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.982][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.983][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.985][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.985][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.986][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.986][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:38.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.989][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.991][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.992][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.993][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.993][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.993][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:38.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.997][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:38.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:38.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.998][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:38.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:38.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:38.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:38.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:38.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:38.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.000][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:39.000][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:39.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.001][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:39.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:39.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.005][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.007][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.010][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.015][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.016][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.017][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.018][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.018][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.018][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.023][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.024][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:39.024][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:39.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.025][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.026][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:39.027][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:39.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.027][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.029][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.029][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.031][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.031][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.032][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.033][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:39.033][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:39.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.034][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.035][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.036][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.036][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.037][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.038][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.040][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-05 18:19:39.040][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:39.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.040][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.042][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.042][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.043][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.044][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:39.044][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:39.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.045][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:39.047][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.048][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-02-05 18:19:39.048][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.048][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:39.052][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-02-05 18:19:39.055][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:39.057][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-02-05 18:19:39.057][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:39.057][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-02-05 18:19:39.058][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:39.068][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:39.068][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:39.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:39.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:39.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:39.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:39.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:39.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:39.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:39.072][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.072][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.073][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.079][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:39.080][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:39.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.080][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.081][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:39.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.082][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:39.082][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:39.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.083][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.083][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:39.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:39.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.084][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.084][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.085][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.086][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.087][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.087][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.088][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:39.088][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:39.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.089][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.089][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:39.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:39.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.090][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:39.090][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.091][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.091][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:39.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.092][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.092][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.093][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.094][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.094][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.095][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.096][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:39.097][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:39.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.097][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.097][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:39.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:39.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.098][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:39.099][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:39.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.099][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.099][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:39.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:39.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:39.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:39.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:39.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:39.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:39.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:39.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:39.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:39.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:39.113][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-02-05 18:19:39.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-02-05 18:19:39.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-02-05 18:19:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-02-05 18:19:39.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-02-05 18:19:39.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-02-05 18:19:39.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-02-05 18:19:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:39.119][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.119][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-02-05 18:19:39.119][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.119][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:39.120][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.121][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.121][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:39.122][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-02-05 18:19:39.130][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.132][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:39.134][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-02-05 18:19:39.136][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 18:19:39.142][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:39.147][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-05 18:19:39.147][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:39.148][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-05 18:19:39.155][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:39.157][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:39.157][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:39.160][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:39.161][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 18:19:39.162][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-02-05 18:19:39.166][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:39.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.167][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.167][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.167][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.168][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:39.169][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.169][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-02-05 18:19:39.170][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.170][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.179][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:39.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:39.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:39.198][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:39.199][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:39.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:39.200][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:39.200][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-02-05 18:19:39.206][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.206][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-02-05 18:19:39.206][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.206][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:39.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.218][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.222][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 18:19:39.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 18:19:39.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.225][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 18:19:39.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 18:19:39.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.232][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:39.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:39.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.235][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:39.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:39.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.239][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-05 18:19:39.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.240][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-05 18:19:39.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-05 18:19:39.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:39.241][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-05 18:19:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-05 18:19:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:39.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:39.245][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.245][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-02-05 18:19:39.245][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.246][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.248][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.249][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-02-05 18:19:39.249][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.249][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.252][biodb::testThat]
biodb.INFO [2025-02-05 18:19:39.252][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-02-05 18:19:39.253][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:39.253][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:39.254][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-02-05 18:19:39.839][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-02-05 18:19:41.021][biodb::testThat]
biodb.INFO [2025-02-05 18:19:41.022][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-02-05 18:19:41.022][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:41.023][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:41.417][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-02-05 18:19:41.821][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:41.822][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:41.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.822][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.823][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:41.823][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:41.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.823][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:41.824][biodb::testThat]
biodb.INFO [2025-02-05 18:19:41.824][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-02-05 18:19:41.825][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:41.825][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:41.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:41.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:41.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.830][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:41.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:41.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:41.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:41.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:41.863][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:41.865][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:41.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:41.865][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:41.866][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 18:19:41.890][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:41.892][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:41.892][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:41.893][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:41.893][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-02-05 18:19:41.899][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 18:19:41.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 18:19:41.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:41.911][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:41.913][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:41.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 18:19:41.914][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:41.915][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 18:19:41.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:41.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:41.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:41.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:41.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:41.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:41.919][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[2025-02-05 18:19:41.920][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-02-05 18:19:41.937][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:41.938][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-02-05 18:19:41.938][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:41.939][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-02-05 18:19:41.940][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:41.940][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:41.940][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:41.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:41.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:41.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:41.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:41.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:41.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:41.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:41.945][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.945][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.946][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.947][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:41.948][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:41.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.948][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.948][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:41.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:41.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:41.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:41.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.950][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:41.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.952][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:41.952][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:41.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.953][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:41.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:41.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.954][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:41.955][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:41.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.955][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:41.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:41.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.957][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:41.957][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:41.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.957][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.958][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:41.958][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.958][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.959][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:41.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:41.960][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:41.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.960][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:41.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:41.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.962][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:41.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:41.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.963][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:41.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:41.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:41.964][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:41.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.965][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.965][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:41.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:41.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:41.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.967][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:41.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:41.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:41.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:41.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:41.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:41.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:41.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:41.982][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-02-05 18:19:41.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:41.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:41.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:41.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:41.989][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:41.990][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:41.991][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 18:19:41.991][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:41.992][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 18:19:41.997][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:41.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:41.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:41.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.000][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[2025-02-05 18:19:42.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.007][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[2025-02-05 18:19:42.007][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-02-05 18:19:42.007][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.008][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-02-05 18:19:42.009][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.012][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-02-05 18:19:42.012][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.013][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.013][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.018][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.018][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.019][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.020][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.021][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.021][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.023][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.023][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.023][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.025][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.026][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.026][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.027][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.027][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.028][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.029][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.029][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.030][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.030][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.031][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.032][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.032][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.034][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.035][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.036][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.038][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.038][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.040][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.040][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.041][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.041][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.056][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-02-05 18:19:42.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.067][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:42.068][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:42.068][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:42.069][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.069][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 18:19:42.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.073][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[2025-02-05 18:19:42.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.079][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[2025-02-05 18:19:42.079][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-02-05 18:19:42.080][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.080][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-02-05 18:19:42.081][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.082][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-02-05 18:19:42.082][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.083][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.083][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.088][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.088][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.089][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.090][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.091][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.091][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.092][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.093][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.096][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.097][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.097][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.098][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.098][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.099][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.099][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.099][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.100][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.101][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.101][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.102][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.102][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.104][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.104][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.104][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.105][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.106][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.106][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.107][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.118][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-02-05 18:19:42.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.123][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.127][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[2025-02-05 18:19:42.127][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-02-05 18:19:42.127][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.128][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-02-05 18:19:42.129][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.130][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-02-05 18:19:42.130][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.131][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.131][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.139][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.139][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.140][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.142][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.142][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.143][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.143][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.144][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.144][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.144][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.145][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.145][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.145][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.146][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.146][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.147][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.147][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.147][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.148][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.148][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.149][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.149][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.149][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.150][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.152][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.152][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.153][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.154][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.154][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.155][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.165][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-02-05 18:19:42.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.176][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[2025-02-05 18:19:42.176][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-02-05 18:19:42.177][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.177][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-02-05 18:19:42.178][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.178][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-02-05 18:19:42.179][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.179][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.184][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.184][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.184][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.186][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.186][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.187][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.187][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.188][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.188][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.189][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.189][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.189][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.190][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.190][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.191][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.191][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.191][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.192][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.193][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.193][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.194][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.195][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.196][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.196][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.196][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.198][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.198][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.198][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.211][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-02-05 18:19:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.220][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[2025-02-05 18:19:42.220][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-02-05 18:19:42.220][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.221][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-02-05 18:19:42.222][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.222][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-02-05 18:19:42.223][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.223][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.223][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.228][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.228][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.229][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.230][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.231][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.231][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.231][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.233][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.233][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.234][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.235][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.237][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.238][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.239][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.240][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.240][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.242][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.242][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.244][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.244][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.246][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.246][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.246][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.251][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.251][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.251][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.252][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.253][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.254][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.254][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.265][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-02-05 18:19:42.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.272][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[2025-02-05 18:19:42.272][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-02-05 18:19:42.272][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.273][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-02-05 18:19:42.273][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.274][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-02-05 18:19:42.274][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.275][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.275][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.279][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.280][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.280][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.282][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.283][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.283][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.284][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.284][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.285][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.285][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.289][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.289][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.290][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.291][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.291][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.292][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.293][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.293][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.294][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.294][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.295][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.296][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.296][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.296][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.298][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.298][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.300][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.300][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.300][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.301][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.302][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.302][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.303][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.303][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.304][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.304][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.305][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.305][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.309][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.317][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-02-05 18:19:42.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.337][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[2025-02-05 18:19:42.337][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-02-05 18:19:42.337][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.338][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-02-05 18:19:42.338][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.339][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-02-05 18:19:42.339][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.339][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.340][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.344][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.344][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.345][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.346][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.346][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.346][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.347][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.348][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.348][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.348][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.349][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.350][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.350][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.350][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.352][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.352][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.353][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.354][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.354][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.354][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.355][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.355][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.355][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.356][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.357][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.357][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.358][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.358][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.359][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.360][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.360][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.361][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.362][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.362][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.363][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.376][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-02-05 18:19:42.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.378][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.382][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[2025-02-05 18:19:42.382][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-02-05 18:19:42.382][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.383][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-02-05 18:19:42.383][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.384][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-02-05 18:19:42.384][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.384][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.385][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.388][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.389][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.389][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.390][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.391][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.391][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.391][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.392][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.393][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.393][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.394][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.395][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.395][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.397][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.398][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.398][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.399][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.399][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.399][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.400][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.401][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.402][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.405][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.406][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.406][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.407][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.408][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.408][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.409][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.409][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.410][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.410][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.410][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.421][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-02-05 18:19:42.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.427][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[2025-02-05 18:19:42.427][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-02-05 18:19:42.427][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.428][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-02-05 18:19:42.429][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.429][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-02-05 18:19:42.430][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.430][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.430][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.435][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.435][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.436][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.437][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.438][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.438][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.439][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.442][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.443][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.443][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.444][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.445][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.445][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.446][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.446][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.447][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.447][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.448][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.449][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.450][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.451][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.451][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.452][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.453][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.453][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.454][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.455][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.456][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.458][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.458][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.459][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.460][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.461][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.461][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.474][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-02-05 18:19:42.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.483][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[2025-02-05 18:19:42.483][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-02-05 18:19:42.484][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.484][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-02-05 18:19:42.485][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.485][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-02-05 18:19:42.486][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.486][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.486][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.491][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.491][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.492][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.493][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.494][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.494][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.494][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.496][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.496][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.496][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.497][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.498][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.498][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.499][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.500][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.500][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.501][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.502][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.502][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.503][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.503][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.504][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.504][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.505][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.506][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.506][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.508][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.508][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.509][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.509][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.510][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.511][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.511][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.512][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.513][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.513][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.514][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.514][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.529][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-02-05 18:19:42.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.536][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[2025-02-05 18:19:42.536][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-02-05 18:19:42.536][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.537][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-02-05 18:19:42.537][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.538][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-02-05 18:19:42.539][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.539][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.544][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.545][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.546][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.547][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.547][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.547][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.548][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.549][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.549][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.550][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.551][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.551][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.551][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.552][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.553][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.553][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.554][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.556][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.556][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.556][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.557][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.557][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.557][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.558][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.559][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.562][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.564][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.565][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.566][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.567][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.567][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.568][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.569][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.569][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.580][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-02-05 18:19:42.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.587][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[2025-02-05 18:19:42.587][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-02-05 18:19:42.587][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.588][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-02-05 18:19:42.588][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.589][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-02-05 18:19:42.589][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.590][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.590][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.594][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.595][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.595][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.596][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.597][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.599][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.600][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.601][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.601][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.602][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.602][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.603][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.604][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.604][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.605][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.605][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.605][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.606][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.606][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.607][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.607][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.608][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.609][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.611][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.611][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.611][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.612][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.613][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.614][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.614][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.615][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.615][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.616][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.626][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-02-05 18:19:42.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.632][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[2025-02-05 18:19:42.633][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-02-05 18:19:42.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.636][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-02-05 18:19:42.636][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.637][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-02-05 18:19:42.637][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.638][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.638][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.642][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.642][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.643][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.644][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.645][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.645][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.646][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.647][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.649][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.649][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.650][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.650][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.651][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.651][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.651][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.652][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.652][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.652][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.654][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.655][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.656][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.657][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.657][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.658][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.658][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.659][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.660][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.661][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.673][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-02-05 18:19:42.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.680][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[2025-02-05 18:19:42.680][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-02-05 18:19:42.681][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.681][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-02-05 18:19:42.682][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.683][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-02-05 18:19:42.683][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.683][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.684][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.688][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.689][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.691][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.691][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.692][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.693][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.693][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.694][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.695][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.695][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.696][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.696][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.697][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.698][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.700][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.700][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.700][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.701][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.701][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.701][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.702][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.703][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.703][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.704][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.705][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.706][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.706][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.708][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.708][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.708][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.711][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.713][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.713][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.714][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.725][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-02-05 18:19:42.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.732][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[2025-02-05 18:19:42.732][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-02-05 18:19:42.732][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.733][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-02-05 18:19:42.733][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.734][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-02-05 18:19:42.734][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.734][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.735][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.739][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.739][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.739][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.741][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.741][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.741][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.742][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.743][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.743][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.744][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.744][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.745][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.746][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.746][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.749][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.750][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.752][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.752][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.753][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.753][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.753][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.754][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.755][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.755][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.755][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.757][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.757][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.757][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.759][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.759][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.760][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.761][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.761][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.762][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.762][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.772][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-02-05 18:19:42.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.778][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[2025-02-05 18:19:42.778][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-02-05 18:19:42.779][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.779][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-02-05 18:19:42.780][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.780][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-02-05 18:19:42.783][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.783][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.784][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.788][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.789][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.789][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.791][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.791][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.791][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.792][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.793][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.793][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.793][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.794][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.795][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.796][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.797][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.797][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.798][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.799][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.799][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.800][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.800][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.800][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.801][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.801][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.802][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.803][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.804][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.805][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.805][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.806][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.807][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.807][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.808][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.809][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.809][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.809][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.810][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.824][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-02-05 18:19:42.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.831][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[2025-02-05 18:19:42.831][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-02-05 18:19:42.831][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.832][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-02-05 18:19:42.833][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.834][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-02-05 18:19:42.834][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.834][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.835][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.839][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.839][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.840][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.841][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.842][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.842][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.842][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.844][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.844][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.846][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.846][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.846][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.848][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.848][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.850][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.850][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.851][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.851][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.852][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.852][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.854][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.855][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.855][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.856][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.860][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.861][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.861][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.862][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.862][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.863][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.863][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.864][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.874][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-02-05 18:19:42.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.881][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[2025-02-05 18:19:42.881][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-02-05 18:19:42.881][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-02-05 18:19:42.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.883][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-02-05 18:19:42.884][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.884][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.884][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.889][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.889][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.890][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.891][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.891][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.892][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.892][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.893][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.893][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.894][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.898][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.898][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.899][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.899][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.900][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.900][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.901][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.902][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.903][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.903][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.904][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.904][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.904][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.906][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.906][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.906][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.908][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.908][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.908][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.909][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.910][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.910][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.911][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.911][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.912][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.913][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.913][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.924][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-02-05 18:19:42.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.933][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[2025-02-05 18:19:42.934][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-02-05 18:19:42.934][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.934][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-02-05 18:19:42.935][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.935][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-02-05 18:19:42.936][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.936][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.937][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.941][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.941][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.942][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.943][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.943][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.944][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.944][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.945][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.945][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.946][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:42.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.947][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.948][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.948][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:42.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:42.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.949][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.950][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.950][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:42.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.952][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.952][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:42.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.952][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.953][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.953][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.953][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.954][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:42.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.955][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.955][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.955][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:42.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.957][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.957][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.958][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:42.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:42.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.959][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.959][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.960][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.960][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:42.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:42.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.961][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.962][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.962][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:42.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:42.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:42.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.976][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-02-05 18:19:42.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:42.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:42.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.983][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[2025-02-05 18:19:42.983][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-02-05 18:19:42.983][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:42.984][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-02-05 18:19:42.984][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:42.985][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-02-05 18:19:42.985][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:42.986][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:42.986][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:42.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:42.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:42.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:42.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:42.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:42.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:42.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:42.992][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.993][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.993][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:42.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:42.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.995][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.995][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.995][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.996][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:42.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:42.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:42.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:42.998][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:42.999][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:43.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.000][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:43.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.002][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:43.003][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:43.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.003][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:43.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:43.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.005][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.005][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.005][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.007][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.007][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.008][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.008][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:43.008][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.009][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.009][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:43.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.011][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.014][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.015][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:43.016][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:43.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.016][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:43.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:43.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.018][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:43.018][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:43.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.018][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.019][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:43.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:43.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.020][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:43.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:43.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.020][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.021][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:43.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.032][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-02-05 18:19:43.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.042][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.043][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.043][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:43.043][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.044][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 18:19:43.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.048][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[2025-02-05 18:19:43.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.057][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[2025-02-05 18:19:43.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.065][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.TRACE[2025-02-05 18:19:43.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.074][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.TRACE[2025-02-05 18:19:43.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.078][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.080][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.083][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.TRACE[2025-02-05 18:19:43.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.093][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[2025-02-05 18:19:43.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.100][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[2025-02-05 18:19:43.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.107][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[2025-02-05 18:19:43.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.114][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[2025-02-05 18:19:43.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.119][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.120][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[2025-02-05 18:19:43.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.124][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.127][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[2025-02-05 18:19:43.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.137][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[2025-02-05 18:19:43.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.144][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.144][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[2025-02-05 18:19:43.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.150][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[2025-02-05 18:19:43.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.156][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.156][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[2025-02-05 18:19:43.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.162][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[2025-02-05 18:19:43.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.169][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[2025-02-05 18:19:43.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.175][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.178][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[2025-02-05 18:19:43.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.184][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[2025-02-05 18:19:43.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.190][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[2025-02-05 18:19:43.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.216][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.217][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-02-05 18:19:43.218][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.219][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-02-05 18:19:43.220][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.221][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.221][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-02-05 18:19:43.222][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.222][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-02-05 18:19:43.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.226][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[2025-02-05 18:19:43.226][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-02-05 18:19:43.227][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:43.227][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-02-05 18:19:43.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.228][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-02-05 18:19:43.228][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:43.229][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:43.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:43.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.230][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:43.234][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.234][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.234][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.236][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:43.236][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:43.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.237][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:43.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:43.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.238][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:43.238][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:43.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.239][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.239][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:43.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:43.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.240][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:43.241][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:43.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.241][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:43.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:43.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.243][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.243][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.243][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.244][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.245][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.246][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.247][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.248][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:43.248][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.249][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.249][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:43.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.251][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.251][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.251][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.256][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:43.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:43.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.257][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:43.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:43.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.259][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:43.259][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:43.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.260][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.260][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:43.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:43.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.262][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:43.262][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:43.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.262][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.263][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:43.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:43.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.274][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-02-05 18:19:43.275][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.281][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[2025-02-05 18:19:43.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.288][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[2025-02-05 18:19:43.288][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-02-05 18:19:43.289][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:43.289][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-02-05 18:19:43.290][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.291][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-02-05 18:19:43.291][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:43.291][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:43.292][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:43.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:43.300][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.300][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.301][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.302][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:43.303][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:43.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.303][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.303][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:43.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:43.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.305][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:43.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:43.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.305][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:43.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:43.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.307][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:43.307][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:43.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.308][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:43.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:43.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.309][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.310][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:43.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.311][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:43.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.312][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.312][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:43.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.313][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:43.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.315][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.317][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:43.317][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:43.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.317][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:43.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:43.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.319][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:43.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:43.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.319][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.320][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:43.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:43.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.321][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:43.321][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:43.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.322][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.322][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:43.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:43.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:43.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:43.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.337][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-02-05 18:19:43.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.347][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.348][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.349][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:43.349][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.349][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 18:19:43.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.353][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[2025-02-05 18:19:43.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.360][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[2025-02-05 18:19:43.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.368][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[2025-02-05 18:19:43.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.380][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[2025-02-05 18:19:43.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.389][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[2025-02-05 18:19:43.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.396][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[2025-02-05 18:19:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.403][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[2025-02-05 18:19:43.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.409][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[2025-02-05 18:19:43.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.418][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.419][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.TRACE[2025-02-05 18:19:43.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.425][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[2025-02-05 18:19:43.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.432][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.TRACE[2025-02-05 18:19:43.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.438][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[2025-02-05 18:19:43.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.445][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[2025-02-05 18:19:43.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.452][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[2025-02-05 18:19:43.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.461][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[2025-02-05 18:19:43.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.468][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[2025-02-05 18:19:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.474][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[2025-02-05 18:19:43.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.481][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.TRACE[2025-02-05 18:19:43.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.487][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[2025-02-05 18:19:43.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.494][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[2025-02-05 18:19:43.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.509][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.510][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.510][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-05 18:19:43.510][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.511][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-05 18:19:43.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.515][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[2025-02-05 18:19:43.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.521][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[2025-02-05 18:19:43.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.529][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[2025-02-05 18:19:43.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.540][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[2025-02-05 18:19:43.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.549][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[2025-02-05 18:19:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.555][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[2025-02-05 18:19:43.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.561][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[2025-02-05 18:19:43.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.568][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[2025-02-05 18:19:43.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.575][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[2025-02-05 18:19:43.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.581][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.584][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[2025-02-05 18:19:43.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.591][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.TRACE[2025-02-05 18:19:43.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.598][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[2025-02-05 18:19:43.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.604][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[2025-02-05 18:19:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.610][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[2025-02-05 18:19:43.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.618][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[2025-02-05 18:19:43.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.624][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[2025-02-05 18:19:43.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.629][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[2025-02-05 18:19:43.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.635][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[2025-02-05 18:19:43.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.640][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[2025-02-05 18:19:43.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.646][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[2025-02-05 18:19:43.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.655][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:43.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:43.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:43.659][biodb::testThat]
biodb.INFO [2025-02-05 18:19:43.659][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-02-05 18:19:43.659][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:43.659][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:43.660][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 18:19:43.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 18:19:43.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.666][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.669][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[2025-02-05 18:19:43.669][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.670][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 18:19:43.671][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.671][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 18:19:43.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.674][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[2025-02-05 18:19:43.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.678][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.679][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.679][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 18:19:43.679][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.680][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 18:19:43.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.683][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.TRACE[2025-02-05 18:19:43.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.691][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[2025-02-05 18:19:43.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.694][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 18:19:43.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.697][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[2025-02-05 18:19:43.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.699][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.699][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.699][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.699][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.701][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.701][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.701][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.702][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.702][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.702][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.703][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.703][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-05 18:19:43.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:43.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.713][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.714][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.714][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.715][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.715][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.715][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.716][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.716][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.716][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.719][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.719][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.723][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 18:19:43.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.725][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[2025-02-05 18:19:43.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.728][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.728][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.728][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.728][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.729][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.729][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.730][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.730][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.731][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.731][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.731][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.732][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.735][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-05 18:19:43.735][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 18:19:43.735][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 18:19:43.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.762][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[2025-02-05 18:19:43.762][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.763][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.764][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-05 18:19:43.764][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.764][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-05 18:19:43.766][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.767][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.767][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-05 18:19:43.767][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.768][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-05 18:19:43.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.771][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[2025-02-05 18:19:43.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.777][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[2025-02-05 18:19:43.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.784][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[2025-02-05 18:19:43.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:43.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.794][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 18:19:43.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.803][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[2025-02-05 18:19:43.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.806][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.806][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.806][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.807][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.808][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.809][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.809][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.809][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.810][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.810][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.815][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-05 18:19:43.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:43.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.829][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.829][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.829][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.830][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.830][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.831][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.831][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.832][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.834][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.835][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.835][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.836][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.839][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 18:19:43.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.841][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[2025-02-05 18:19:43.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.846][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.846][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.846][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.846][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.847][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.847][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.848][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.849][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.849][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.850][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.850][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.853][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-05 18:19:43.853][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 18:19:43.853][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 18:19:43.856][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:43.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:43.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:43.858][biodb::testThat]
biodb.INFO [2025-02-05 18:19:43.858][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-02-05 18:19:43.858][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:43.858][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:43.859][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 18:19:43.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 18:19:43.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.867][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[2025-02-05 18:19:43.868][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.869][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.869][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 18:19:43.869][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.870][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 18:19:43.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.873][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[2025-02-05 18:19:43.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.878][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:43.879][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:43.879][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 18:19:43.880][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:43.880][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 18:19:43.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.883][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[2025-02-05 18:19:43.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.889][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.TRACE[2025-02-05 18:19:43.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:43.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:43.892][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 18:19:43.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.895][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[2025-02-05 18:19:43.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.897][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.897][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.898][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.898][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.899][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.900][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.900][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.900][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.901][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.901][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.904][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-05 18:19:43.905][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:43.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.977][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.978][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.978][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.979][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.980][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.980][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.981][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.981][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.984][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 18:19:43.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:43.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:43.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:43.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:43.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:43.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:43.987][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[2025-02-05 18:19:43.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.990][private$selectFields]
biodb.TRACE[2025-02-05 18:19:43.990][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:43.990][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:43.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.991][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.992][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.993][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:43.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.993][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.994][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:43.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:43.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:43.997][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-05 18:19:43.997][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 18:19:43.997][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 18:19:44.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.007][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[2025-02-05 18:19:44.008][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:44.009][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:44.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-05 18:19:44.010][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.010][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-05 18:19:44.011][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:44.012][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:44.012][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-05 18:19:44.013][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.013][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-05 18:19:44.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.017][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[2025-02-05 18:19:44.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.024][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[2025-02-05 18:19:44.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.030][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.030][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[2025-02-05 18:19:44.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.033][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 18:19:44.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.037][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[2025-02-05 18:19:44.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.039][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.040][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.040][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.040][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.040][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.041][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.042][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.042][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.043][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.043][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.043][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.044][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.044][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.048][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-05 18:19:44.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:44.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.053][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.054][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.054][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.055][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.056][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.056][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.057][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.057][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.058][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.058][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.061][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 18:19:44.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.064][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[2025-02-05 18:19:44.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.069][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.069][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.070][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.070][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.071][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.072][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.072][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.072][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.072][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.073][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.073][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.073][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.076][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-05 18:19:44.076][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 18:19:44.077][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 18:19:44.079][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:44.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:44.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:44.082][biodb::testThat]
biodb.INFO [2025-02-05 18:19:44.082][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-02-05 18:19:44.082][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:44.082][biodb::testThat]
biodb.TRACE[2025-02-05 18:19:44.083][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-05 18:19:44.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-05 18:19:44.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.091][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[2025-02-05 18:19:44.092][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:44.093][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:44.093][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-05 18:19:44.094][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.094][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-05 18:19:44.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.097][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[2025-02-05 18:19:44.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.100][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:44.101][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:44.102][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-05 18:19:44.102][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.102][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-05 18:19:44.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.105][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[2025-02-05 18:19:44.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.111][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[2025-02-05 18:19:44.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.115][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 18:19:44.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.118][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[2025-02-05 18:19:44.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.120][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.120][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.120][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.122][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.122][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.123][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.123][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.123][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.124][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.124][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.127][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-05 18:19:44.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:44.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.132][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.133][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.133][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.134][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.134][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.135][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.135][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.136][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.137][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.140][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 18:19:44.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.142][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[2025-02-05 18:19:44.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.145][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.145][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.145][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.146][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.147][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.147][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.148][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.148][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.148][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.148][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.149][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.149][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.152][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-05 18:19:44.152][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 18:19:44.155][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 18:19:44.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.167][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[2025-02-05 18:19:44.168][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:44.169][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:44.169][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-05 18:19:44.170][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.170][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-05 18:19:44.171][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:44.171][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:44.172][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-05 18:19:44.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.172][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-05 18:19:44.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.175][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[2025-02-05 18:19:44.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.180][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[2025-02-05 18:19:44.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.186][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[2025-02-05 18:19:44.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.189][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-05 18:19:44.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.192][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[2025-02-05 18:19:44.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.193][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.194][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.194][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.194][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.195][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.196][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.196][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.197][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.197][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.197][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.198][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.198][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.201][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-05 18:19:44.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:44.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.206][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.206][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.206][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.207][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.208][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.208][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.209][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.209][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.209][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.209][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.210][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.210][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.213][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-05 18:19:44.214][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.216][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[2025-02-05 18:19:44.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.218][private$selectFields]
biodb.TRACE[2025-02-05 18:19:44.218][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-05 18:19:44.219][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-05 18:19:44.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.219][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.220][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.220][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.221][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.221][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.221][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-05 18:19:44.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.222][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.222][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-05 18:19:44.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.225][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-05 18:19:44.226][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-05 18:19:44.226][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-05 18:19:44.232][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:44.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-05 18:19:44.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:44.234][biodb::testThat]
biodb.INFO [2025-02-05 18:19:44.235][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-02-05 18:19:44.235][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:44.235][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:44.236][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-02-05 18:19:44.236][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:44.236][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-02-05 18:19:44.237][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:44.238][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-02-05 18:19:44.239][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:44.239][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:44.240][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:44.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:44.247][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.247][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.247][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.249][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:44.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:44.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.250][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.250][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:44.250][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:44.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.251][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:44.251][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:44.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.252][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.252][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:44.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:44.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.253][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.253][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:44.253][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:44.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.254][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.254][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:44.255][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:44.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.255][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:44.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.256][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.256][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:44.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:44.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.257][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.257][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:44.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:44.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.258][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.258][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:44.259][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:44.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.259][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:44.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:44.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:44.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:44.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:44.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:44.270][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-02-05 18:19:44.270][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-02-05 18:19:44.273][biodb::testThat]
biodb.INFO [2025-02-05 18:19:44.273][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-02-05 18:19:44.273][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:44.273][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:44.277][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-02-05 18:19:44.277][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-02-05 18:19:44.277][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-02-05 18:19:44.278][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.INFO [2025-02-05 18:19:44.278][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-02-05 18:19:44.279][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-02-05 18:19:44.279][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 18:19:44.279][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:44.279][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 18:19:44.280][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 18:19:44.280][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 18:19:44.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:44.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:44.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:44.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:44.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:44.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:44.284][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[2025-02-05 18:19:44.285][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-02-05 18:19:44.285][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:44.286][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:44.286][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-02-05 18:19:44.644][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-02-05 18:19:44.998][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2025-02-05 18:19:44.999][self$getFolderPath] Create cache folder "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-02-05 18:19:44.999][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-02-05 18:19:45.004][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-02-05 18:19:45.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:45.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:45.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:45.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:45.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:45.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:45.009][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[2025-02-05 18:19:45.009][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-02-05 18:19:45.014][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:45.015][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:45.020][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-02-05 18:19:45.381][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-02-05 18:19:45.827][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:45.828][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-02-05 18:19:45.829][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-02-05 18:19:45.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:45.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:45.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:45.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:45.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:45.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:45.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:45.833][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-02-05 18:19:45.834][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:45.834][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:45.834][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-02-05 18:19:46.211][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-02-05 18:19:46.577][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:46.578][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-02-05 18:19:46.579][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-02-05 18:19:46.580][private$doSaveContentToFile] Saving to cache [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-02-05 18:19:46.581][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 18:19:46.581][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-02-05 18:19:46.582][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:46.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:46.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:46.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:46.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:46.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:46.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:46.585][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.TRACE[2025-02-05 18:19:46.586][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.587][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.587][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.588][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:46.589][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:46.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.589][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.590][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:46.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:46.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.590][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.591][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:46.591][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:46.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.592][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.592][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.593][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.593][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.593][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.594][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.594][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:46.594][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:46.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.595][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.595][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.595][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.596][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.596][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:46.596][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:46.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.597][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.597][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:46.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:46.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.598][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:46.598][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:46.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.599][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:46.610][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:46.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:46.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:46.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:46.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:46.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:46.613][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[2025-02-05 18:19:46.614][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.614][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.615][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.616][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:46.616][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:46.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.617][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.617][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:46.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:46.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.618][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:46.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:46.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.618][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.619][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:46.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:46.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.620][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:46.620][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:46.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.620][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:46.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.622][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.622][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.623][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.623][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.624][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.624][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.624][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.625][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:46.626][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:46.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.626][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.626][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:46.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:46.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.627][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.628][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.629][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:46.629][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:46.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.630][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:46.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:46.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.631][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:46.631][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:46.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.632][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.632][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:46.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:46.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:46.633][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:46.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.633][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.634][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:46.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:46.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:46.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:46.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:46.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:46.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:46.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:46.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:46.644][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[2025-02-05 18:19:46.645][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.646][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.647][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:46.647][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:46.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.648][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.648][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:46.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:46.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.649][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:46.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:46.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.650][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:46.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:46.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:46.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.651][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:46.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:46.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.653][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.653][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.653][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:46.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.655][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.655][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.656][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:46.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.657][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:46.657][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:46.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.657][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.658][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:46.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:46.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.658][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.659][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.659][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:46.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.660][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:46.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:46.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.661][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:46.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.662][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:46.663][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:46.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.663][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.663][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:46.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:46.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.664][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:46.665][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:46.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.665][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.665][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:46.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:46.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:46.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:46.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:46.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:46.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:46.681][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-02-05 18:19:46.681][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-02-05 18:19:46.681][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-02-05 18:19:46.688][biodb::testThat]
biodb.INFO [2025-02-05 18:19:46.689][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-02-05 18:19:46.689][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:46.689][biodb::testThat]
biodb.INFO [2025-02-05 18:19:46.697][biodb::testThat]
biodb.INFO [2025-02-05 18:19:46.697][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-02-05 18:19:46.697][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:46.698][biodb::testThat]
biodb.INFO [2025-02-05 18:19:46.701][biodb::testThat]
biodb.INFO [2025-02-05 18:19:46.701][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-02-05 18:19:46.701][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:46.701][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:46.702][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:46.703][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:46.703][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:46.704][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:47.165][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:47.668][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:47.669][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-02-05 18:19:47.671][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-02-05 18:19:47.675][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:47.675][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:47.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:47.676][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:47.676][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:47.676][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:47.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:47.677][ef$get] fields variable is a list.
biodb.INFO [2025-02-05 18:19:47.677][biodb::testThat]
biodb.INFO [2025-02-05 18:19:47.677][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-02-05 18:19:47.678][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:47.678][biodb::testThat]
biodb.ERROR[2025-02-05 18:19:47.682][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-02-05 18:19:47.687][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-02-05 18:19:47.692][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 18:19:47.692][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 18:19:47.692][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 18:19:47.693][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 18:19:47.693][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.693][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.694][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 18:19:47.697][biodb::testContext]
biodb.INFO [2025-02-05 18:19:47.698][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:47.698][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-02-05 18:19:47.698][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:47.699][biodb::testContext]
biodb.INFO [2025-02-05 18:19:47.699][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:47.700][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:47.701][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:47.702][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 18:19:47.702][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 18:19:47.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.703][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[2025-02-05 18:19:47.703][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 18:19:47.703][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 18:19:47.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.704][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 18:19:47.704][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 18:19:47.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.705][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[2025-02-05 18:19:47.705][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 18:19:47.705][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 18:19:47.706][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 18:19:47.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.707][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 18:19:47.707][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 18:19:47.707][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 18:19:47.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.708][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[2025-02-05 18:19:47.708][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 18:19:47.708][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 18:19:47.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.709][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 18:19:47.709][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 18:19:47.710][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 18:19:47.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.710][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[2025-02-05 18:19:47.711][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 18:19:47.711][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 18:19:47.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.712][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 18:19:47.712][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 18:19:47.712][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 18:19:47.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.713][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[2025-02-05 18:19:47.713][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:47.713][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 18:19:47.714][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 18:19:47.714][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 18:19:47.714][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 18:19:47.714][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 18:19:47.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.715][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 18:19:47.716][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 18:19:47.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.716][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[2025-02-05 18:19:47.716][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 18:19:47.717][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 18:19:47.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.718][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 18:19:47.718][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 18:19:47.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.719][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[2025-02-05 18:19:47.719][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 18:19:47.719][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 18:19:47.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.720][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 18:19:47.720][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 18:19:47.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.721][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[2025-02-05 18:19:47.721][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:47.721][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 18:19:47.728][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 18:19:47.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:47.729][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 18:19:47.730][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 18:19:47.730][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 18:19:47.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.731][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[2025-02-05 18:19:47.732][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 18:19:47.732][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.732][self$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[2025-02-05 18:19:47.733][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.733][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:47.733][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.734][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.734][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.734][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.734][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:47.735][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:47.735][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.735][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 18:19:47.735][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:47.736][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:47.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.737][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:47.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.738][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.738][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.738][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.738][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:47.739][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:47.739][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.739][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.739][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 18:19:47.740][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.740][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:47.741][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.741][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:47.741][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.741][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.742][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.742][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.742][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:47.742][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:47.743][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.743][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 18:19:47.743][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:47.744][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:47.745][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:47.745][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.745][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:47.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.746][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.746][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.746][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.747][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:47.747][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:47.747][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.747][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.748][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 18:19:47.748][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.749][self$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[2025-02-05 18:19:47.749][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.749][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:47.749][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.750][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.750][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.750][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.750][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:47.751][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:47.751][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.751][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 18:19:47.751][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:47.752][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.752][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.752][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.756][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:47.757][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:47.758][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.758][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.759][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.759][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.759][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:47.759][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:47.760][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.760][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.760][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 18:19:47.761][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.761][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:47.761][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.761][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:47.762][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.762][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.762][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.763][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.763][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:47.763][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:47.763][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.764][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 18:19:47.764][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:47.764][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.764][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.765][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.765][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:47.765][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.766][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.767][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:47.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.767][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.767][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.768][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.768][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:47.768][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:47.768][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.768][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:47.769][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:47.769][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.769][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[2025-02-05 18:19:47.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.770][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[2025-02-05 18:19:47.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.771][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[2025-02-05 18:19:47.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.773][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[2025-02-05 18:19:47.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.774][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[2025-02-05 18:19:47.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.775][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[2025-02-05 18:19:47.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.776][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[2025-02-05 18:19:47.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.777][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[2025-02-05 18:19:47.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.778][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[2025-02-05 18:19:47.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.779][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[2025-02-05 18:19:47.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.780][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[2025-02-05 18:19:47.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.781][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[2025-02-05 18:19:47.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.782][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[2025-02-05 18:19:47.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.783][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[2025-02-05 18:19:47.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.784][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[2025-02-05 18:19:47.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.786][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[2025-02-05 18:19:47.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.787][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[2025-02-05 18:19:47.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.788][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[2025-02-05 18:19:47.788][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 18:19:47.789][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 18:19:47.789][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 18:19:47.790][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 18:19:47.790][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:47.790][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 18:19:47.791][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:47.791][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:47.792][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 18:19:47.792][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 18:19:47.792][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:47.793][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 18:19:47.793][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:47.794][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:47.794][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 18:19:47.794][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 18:19:47.795][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 18:19:47.795][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 18:19:47.796][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:47.796][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 18:19:47.797][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 18:19:47.797][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 18:19:47.797][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 18:19:47.798][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 18:19:47.798][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 18:19:47.798][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 18:19:47.799][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 18:19:47.799][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 18:19:47.800][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 18:19:47.800][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 18:19:47.800][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 18:19:47.801][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 18:19:47.801][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 18:19:47.801][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 18:19:47.802][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 18:19:47.802][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 18:19:47.803][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 18:19:47.803][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 18:19:47.803][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 18:19:47.804][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 18:19:47.804][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 18:19:47.804][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 18:19:47.805][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 18:19:47.805][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 18:19:47.805][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 18:19:47.806][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 18:19:47.806][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 18:19:47.807][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 18:19:47.808][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 18:19:47.808][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 18:19:47.809][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 18:19:47.809][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 18:19:47.809][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 18:19:47.810][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 18:19:47.810][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 18:19:47.810][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 18:19:47.811][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 18:19:47.811][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 18:19:47.812][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 18:19:47.812][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 18:19:47.812][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 18:19:47.813][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 18:19:47.813][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 18:19:47.813][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 18:19:47.814][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 18:19:47.814][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 18:19:47.814][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:47.815][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:47.815][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 18:19:47.816][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 18:19:47.816][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 18:19:47.816][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 18:19:47.817][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 18:19:47.817][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 18:19:47.817][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 18:19:47.818][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 18:19:47.818][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 18:19:47.819][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 18:19:47.819][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 18:19:47.820][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 18:19:47.820][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 18:19:47.820][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 18:19:47.821][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 18:19:47.821][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 18:19:47.822][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:47.822][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:47.822][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.823][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.823][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[2025-02-05 18:19:47.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.824][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[2025-02-05 18:19:47.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.826][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[2025-02-05 18:19:47.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.828][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[2025-02-05 18:19:47.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.831][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[2025-02-05 18:19:47.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.833][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[2025-02-05 18:19:47.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.833][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.834][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[2025-02-05 18:19:47.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.836][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[2025-02-05 18:19:47.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.837][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[2025-02-05 18:19:47.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.839][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[2025-02-05 18:19:47.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.848][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[2025-02-05 18:19:47.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.850][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[2025-02-05 18:19:47.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.854][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[2025-02-05 18:19:47.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.856][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[2025-02-05 18:19:47.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.860][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[2025-02-05 18:19:47.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.862][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[2025-02-05 18:19:47.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.864][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[2025-02-05 18:19:47.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:47.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:47.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:47.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:47.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:47.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:47.866][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[2025-02-05 18:19:47.866][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:47.867][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 18:19:47.867][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.868][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.868][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.868][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:47.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.869][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.869][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 18:19:47.869][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 18:19:47.870][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:47.870][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.870][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 18:19:47.871][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:47.873][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:47.873][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:47.873][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:47.873][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 18:19:47.873][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.874][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.874][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:47.874][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:47.874][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:47.875][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:47.875][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 18:19:47.875][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 18:19:47.875][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:47.875][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:47.876][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:47.876][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 18:19:47.876][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 18:19:47.876][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:47.877][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:47.877][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 18:19:47.877][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:47.878][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:47.878][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:47.879][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 18:19:47.880][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 18:19:47.880][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 18:19:47.880][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 18:19:47.881][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:47.881][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:47.881][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 18:19:47.882][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 18:19:47.882][biodb::testThat]
biodb.INFO [2025-02-05 18:19:47.882][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-02-05 18:19:47.882][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:47.883][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:47.884][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 18:19:47.890][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:47.891][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:47.891][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-02-05 18:19:48.230][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-02-05 18:19:48.723][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:48.724][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-02-05 18:19:48.725][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-02-05 18:19:48.727][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:48.728][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:48.728][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:48.729][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:49.092][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:49.444][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:49.445][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-02-05 18:19:49.446][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-02-05 18:19:49.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:49.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:49.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:49.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:49.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:49.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:49.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:49.450][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:49.451][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:49.451][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:49.452][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:49.845][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:50.210][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:50.211][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-02-05 18:19:50.212][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-02-05 18:19:50.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.216][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[2025-02-05 18:19:50.222][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.222][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.224][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[2025-02-05 18:19:50.226][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:50.227][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:50.227][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-05 18:19:50.228][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:50.228][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-05 18:19:50.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.231][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[2025-02-05 18:19:50.232][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:50.233][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:50.233][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-05 18:19:50.234][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:50.234][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-05 18:19:50.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.237][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.237][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[2025-02-05 18:19:50.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.240][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[2025-02-05 18:19:50.241][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:50.242][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:50.242][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-05 18:19:50.243][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:50.243][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-05 18:19:50.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.247][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[2025-02-05 18:19:50.247][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:50.248][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:50.248][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-05 18:19:50.249][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:50.249][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-05 18:19:50.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.252][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[2025-02-05 18:19:50.252][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:50.253][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:50.254][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:50.254][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:50.624][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:50.990][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:50.991][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-02-05 18:19:50.992][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-02-05 18:19:50.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:50.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:50.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:50.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:50.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:50.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:50.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 18:19:50.998][biodb::testThat]
biodb.INFO [2025-02-05 18:19:50.999][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-02-05 18:19:50.999][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:50.999][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:51.000][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:51.001][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:51.002][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:51.008][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:51.362][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI%3D1S%2FC15H24%2Fc1-9%282%2911-7-8-15%284%2912-6-5-10%283%2914%2815%2913%2811%2912%2Fh5%2C9%2C11-14H%2C6-8H2%2C1-4H3%2Ft11%3F%2C12%3F%2C13%3F%2C14%3F%2C15-%2Fm0%2Fs1&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:51.721][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:51.721][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-02-05 18:19:51.723][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-02-05 18:19:51.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:51.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:51.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:51.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:51.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:51.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:51.727][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[2025-02-05 18:19:51.728][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:51.729][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:51.729][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:51.730][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:52.086][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:52.447][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:52.447][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-02-05 18:19:52.449][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-02-05 18:19:52.449][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:52.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 18:19:52.453][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 18:19:52.454][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 18:19:52.454][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 18:19:52.454][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 18:19:52.454][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.455][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.455][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-05 18:19:52.457][biodb::testContext]
biodb.INFO [2025-02-05 18:19:52.457][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:52.457][biodb::testContext] Test context - Test web services
biodb.INFO [2025-02-05 18:19:52.457][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:52.457][biodb::testContext]
biodb.INFO [2025-02-05 18:19:52.458][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:52.458][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:52.460][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:52.460][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 18:19:52.460][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 18:19:52.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.461][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[2025-02-05 18:19:52.461][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 18:19:52.461][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 18:19:52.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.462][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 18:19:52.462][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 18:19:52.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.463][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[2025-02-05 18:19:52.463][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 18:19:52.463][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 18:19:52.464][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 18:19:52.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.464][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 18:19:52.465][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 18:19:52.465][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 18:19:52.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.465][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[2025-02-05 18:19:52.466][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 18:19:52.466][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 18:19:52.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.467][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 18:19:52.467][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 18:19:52.467][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 18:19:52.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.468][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[2025-02-05 18:19:52.468][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 18:19:52.468][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 18:19:52.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.469][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 18:19:52.469][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 18:19:52.469][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 18:19:52.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.470][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[2025-02-05 18:19:52.470][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:52.470][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 18:19:52.471][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 18:19:52.471][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 18:19:52.471][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 18:19:52.471][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 18:19:52.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.472][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 18:19:52.472][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 18:19:52.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.473][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[2025-02-05 18:19:52.473][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 18:19:52.473][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 18:19:52.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.474][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 18:19:52.474][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 18:19:52.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.475][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[2025-02-05 18:19:52.475][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 18:19:52.475][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 18:19:52.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.476][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 18:19:52.476][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 18:19:52.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.477][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[2025-02-05 18:19:52.477][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:52.477][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 18:19:52.484][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 18:19:52.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:52.485][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 18:19:52.485][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 18:19:52.486][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 18:19:52.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.486][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[2025-02-05 18:19:52.487][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 18:19:52.487][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.487][self$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[2025-02-05 18:19:52.488][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.488][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:52.488][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.488][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.489][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.489][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.489][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:52.489][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:52.490][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.490][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 18:19:52.490][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:52.490][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:52.491][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.492][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:52.492][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.492][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.493][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.493][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:52.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:52.494][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.494][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.494][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 18:19:52.495][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.495][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:52.495][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.495][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:52.496][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.496][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.496][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.496][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.497][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:52.497][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:52.497][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.497][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:52.498][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:52.499][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:52.499][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.499][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.499][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:52.500][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.500][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.500][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.501][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:52.501][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:52.501][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.501][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.502][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 18:19:52.502][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.502][self$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[2025-02-05 18:19:52.503][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.503][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:52.503][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.503][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.504][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.504][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.504][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:52.504][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:52.505][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.505][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 18:19:52.505][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:52.505][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.506][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.506][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:52.506][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.506][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.507][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:52.507][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.507][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.507][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.508][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.508][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:52.508][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:52.508][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.509][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.509][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 18:19:52.509][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.510][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:52.510][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.510][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:52.510][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.511][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.511][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.511][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.511][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:52.512][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:52.512][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.512][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 18:19:52.512][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:52.513][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.513][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.513][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.513][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:52.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.514][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.514][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:52.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.514][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.515][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.515][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.515][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:52.515][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:52.516][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.516][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:52.516][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:52.516][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.517][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[2025-02-05 18:19:52.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.518][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[2025-02-05 18:19:52.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.519][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[2025-02-05 18:19:52.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.520][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[2025-02-05 18:19:52.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.521][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[2025-02-05 18:19:52.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.522][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[2025-02-05 18:19:52.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.523][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[2025-02-05 18:19:52.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.524][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[2025-02-05 18:19:52.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.547][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[2025-02-05 18:19:52.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.548][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.DEBUG[2025-02-05 18:19:52.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.549][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[2025-02-05 18:19:52.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.551][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[2025-02-05 18:19:52.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.552][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[2025-02-05 18:19:52.552][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.553][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[2025-02-05 18:19:52.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.554][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[2025-02-05 18:19:52.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.555][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[2025-02-05 18:19:52.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.556][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[2025-02-05 18:19:52.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.558][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[2025-02-05 18:19:52.558][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 18:19:52.558][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 18:19:52.559][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 18:19:52.559][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 18:19:52.559][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:52.560][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 18:19:52.560][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:52.560][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:52.561][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 18:19:52.561][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 18:19:52.561][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:52.562][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 18:19:52.562][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:52.563][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:52.563][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 18:19:52.563][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 18:19:52.564][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 18:19:52.564][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 18:19:52.564][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:52.565][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 18:19:52.565][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 18:19:52.565][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 18:19:52.566][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 18:19:52.566][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 18:19:52.566][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 18:19:52.567][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 18:19:52.567][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 18:19:52.567][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 18:19:52.568][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 18:19:52.568][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 18:19:52.568][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 18:19:52.569][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 18:19:52.569][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 18:19:52.570][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 18:19:52.570][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 18:19:52.570][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 18:19:52.571][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 18:19:52.571][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 18:19:52.571][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 18:19:52.572][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 18:19:52.572][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 18:19:52.572][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 18:19:52.573][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 18:19:52.573][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 18:19:52.573][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 18:19:52.574][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 18:19:52.574][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 18:19:52.574][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 18:19:52.575][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 18:19:52.575][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 18:19:52.575][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 18:19:52.576][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 18:19:52.576][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 18:19:52.577][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 18:19:52.577][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 18:19:52.577][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 18:19:52.578][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 18:19:52.578][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 18:19:52.578][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 18:19:52.579][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 18:19:52.579][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 18:19:52.579][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 18:19:52.580][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 18:19:52.580][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 18:19:52.581][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 18:19:52.581][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 18:19:52.581][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:52.582][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:52.582][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 18:19:52.582][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 18:19:52.583][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 18:19:52.583][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 18:19:52.583][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 18:19:52.584][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 18:19:52.584][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 18:19:52.585][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 18:19:52.585][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 18:19:52.585][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 18:19:52.586][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 18:19:52.586][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 18:19:52.586][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 18:19:52.587][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 18:19:52.587][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 18:19:52.587][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 18:19:52.588][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:52.588][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:52.589][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.589][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.589][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[2025-02-05 18:19:52.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.591][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[2025-02-05 18:19:52.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.592][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[2025-02-05 18:19:52.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.593][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.594][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[2025-02-05 18:19:52.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.595][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[2025-02-05 18:19:52.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.596][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[2025-02-05 18:19:52.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.598][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[2025-02-05 18:19:52.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.599][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[2025-02-05 18:19:52.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.601][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[2025-02-05 18:19:52.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.602][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[2025-02-05 18:19:52.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.604][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[2025-02-05 18:19:52.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.605][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[2025-02-05 18:19:52.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.607][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[2025-02-05 18:19:52.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.608][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[2025-02-05 18:19:52.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.610][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[2025-02-05 18:19:52.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.611][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[2025-02-05 18:19:52.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.613][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[2025-02-05 18:19:52.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:52.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:52.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:52.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:52.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:52.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:52.614][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[2025-02-05 18:19:52.615][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:52.615][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 18:19:52.616][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.616][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.617][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.617][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:52.617][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.617][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.618][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.618][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 18:19:52.618][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 18:19:52.618][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 18:19:52.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 18:19:52.620][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:52.620][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:52.620][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:52.620][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:52.620][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 18:19:52.620][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:52.621][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:52.621][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:52.622][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:52.622][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 18:19:52.622][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 18:19:52.622][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:52.622][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:52.623][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:52.623][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 18:19:52.623][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 18:19:52.623][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:52.624][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:52.624][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 18:19:52.624][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:52.625][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:52.628][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:52.629][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 18:19:52.629][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 18:19:52.629][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 18:19:52.630][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 18:19:52.630][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:52.630][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:52.631][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 18:19:52.631][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 18:19:52.632][biodb::testThat]
biodb.INFO [2025-02-05 18:19:52.632][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-02-05 18:19:52.632][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:52.632][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:52.633][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 18:19:52.634][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:52.635][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-05 18:19:52.635][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:52.635][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-05 18:19:52.637][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:52.638][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:52.638][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:52.638][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-02-05 18:19:52.998][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI%20ID&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-02-05 18:19:53.352][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:53.353][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-02-05 18:19:53.354][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-02-05 18:19:53.357][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 18:19:53.357][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 18:19:53.358][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 18:19:53.358][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 18:19:53.358][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.359][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.359][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.359][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 [2025-02-05 18:19:53.360][biodb::testContext]
biodb.INFO [2025-02-05 18:19:53.361][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:53.361][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-02-05 18:19:53.361][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-05 18:19:53.361][biodb::testContext]
biodb.INFO [2025-02-05 18:19:53.362][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:53.363][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:53.364][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:53.364][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-05 18:19:53.365][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-05 18:19:53.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.366][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-05 18:19:53.366][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-05 18:19:53.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.367][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[2025-02-05 18:19:53.367][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-05 18:19:53.367][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-05 18:19:53.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.368][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-05 18:19:53.368][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-05 18:19:53.368][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-05 18:19:53.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.369][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[2025-02-05 18:19:53.369][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-05 18:19:53.370][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-05 18:19:53.370][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-05 18:19:53.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.371][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-05 18:19:53.371][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-05 18:19:53.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.372][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[2025-02-05 18:19:53.372][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-05 18:19:53.372][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-05 18:19:53.372][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-05 18:19:53.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.373][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-05 18:19:53.373][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-05 18:19:53.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.374][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[2025-02-05 18:19:53.374][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-05 18:19:53.375][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-05 18:19:53.375][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-05 18:19:53.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.376][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:53.376][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-05 18:19:53.376][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-05 18:19:53.377][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-05 18:19:53.377][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-05 18:19:53.377][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-05 18:19:53.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.378][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[2025-02-05 18:19:53.378][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-05 18:19:53.378][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-05 18:19:53.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.379][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-05 18:19:53.379][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-05 18:19:53.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.380][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[2025-02-05 18:19:53.380][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-05 18:19:53.381][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-05 18:19:53.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.382][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-05 18:19:53.382][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-05 18:19:53.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.382][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[2025-02-05 18:19:53.383][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-05 18:19:53.383][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-05 18:19:53.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.384][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-05 18:19:53.384][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-05 18:19:53.391][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-05 18:19:53.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.392][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[2025-02-05 18:19:53.393][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-05 18:19:53.393][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-05 18:19:53.393][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-05 18:19:53.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-05 18:19:53.394][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-05 18:19:53.395][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.395][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-05 18:19:53.395][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.395][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:53.396][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.396][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.396][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.397][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.397][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:53.397][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:53.397][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.398][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-05 18:19:53.398][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:53.398][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.398][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:53.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.399][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.400][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:53.400][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.400][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.401][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.401][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:53.401][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:53.401][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.401][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.402][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-05 18:19:53.402][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.403][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:53.403][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.403][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:53.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.404][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.404][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.404][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:53.405][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:53.405][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.405][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-05 18:19:53.405][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-05 18:19:53.406][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:53.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.407][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.407][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:53.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.408][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.408][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.408][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.408][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:53.409][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:53.409][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.409][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.409][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-05 18:19:53.410][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.410][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-05 18:19:53.410][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.411][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:53.411][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.411][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.411][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.412][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.412][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-05 18:19:53.412][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:53.412][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.413][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-05 18:19:53.413][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:53.413][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.413][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.414][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.414][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:53.414][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.414][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.415][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:53.415][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.415][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.415][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.416][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.416][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:53.416][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:53.416][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.416][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.417][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-05 18:19:53.417][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.418][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-05 18:19:53.418][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.418][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:53.418][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.419][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.419][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-05 18:19:53.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:53.420][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.420][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-05 18:19:53.420][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:53.421][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.421][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.421][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.421][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-05 18:19:53.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.422][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:53.422][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.423][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.423][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.423][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:53.423][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:53.424][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.424][self$setPropertyValue]
biodb.DEBUG[2025-02-05 18:19:53.424][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:53.425][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.425][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[2025-02-05 18:19:53.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.426][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[2025-02-05 18:19:53.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.427][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[2025-02-05 18:19:53.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.428][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[2025-02-05 18:19:53.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.429][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[2025-02-05 18:19:53.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.430][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[2025-02-05 18:19:53.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.432][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[2025-02-05 18:19:53.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.433][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[2025-02-05 18:19:53.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.437][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[2025-02-05 18:19:53.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.438][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[2025-02-05 18:19:53.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.440][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[2025-02-05 18:19:53.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.441][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[2025-02-05 18:19:53.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.442][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[2025-02-05 18:19:53.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.443][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[2025-02-05 18:19:53.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.444][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[2025-02-05 18:19:53.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.445][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[2025-02-05 18:19:53.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.446][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[2025-02-05 18:19:53.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.447][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[2025-02-05 18:19:53.448][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-05 18:19:53.448][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-05 18:19:53.448][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-05 18:19:53.449][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-05 18:19:53.449][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:53.449][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-05 18:19:53.450][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:53.450][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:53.451][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-05 18:19:53.451][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-05 18:19:53.451][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:53.452][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-05 18:19:53.452][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-05 18:19:53.452][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-05 18:19:53.453][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-05 18:19:53.453][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-05 18:19:53.454][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-05 18:19:53.454][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-05 18:19:53.454][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:53.455][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-05 18:19:53.455][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-05 18:19:53.455][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-05 18:19:53.456][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-05 18:19:53.456][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-05 18:19:53.456][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-05 18:19:53.457][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-05 18:19:53.457][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-05 18:19:53.457][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-05 18:19:53.458][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-05 18:19:53.458][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-05 18:19:53.459][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-05 18:19:53.459][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-05 18:19:53.459][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-05 18:19:53.460][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-05 18:19:53.460][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-05 18:19:53.460][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-05 18:19:53.461][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-05 18:19:53.461][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-05 18:19:53.461][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-05 18:19:53.462][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-05 18:19:53.462][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-05 18:19:53.462][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-05 18:19:53.463][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-05 18:19:53.463][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-05 18:19:53.463][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-05 18:19:53.464][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-05 18:19:53.464][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-05 18:19:53.465][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-05 18:19:53.465][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-05 18:19:53.465][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-05 18:19:53.466][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-05 18:19:53.466][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-05 18:19:53.466][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-05 18:19:53.467][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-05 18:19:53.467][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-05 18:19:53.467][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-05 18:19:53.468][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-05 18:19:53.468][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-05 18:19:53.469][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-05 18:19:53.469][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-05 18:19:53.469][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-05 18:19:53.470][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-05 18:19:53.470][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-05 18:19:53.470][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-05 18:19:53.471][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-05 18:19:53.471][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-05 18:19:53.471][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:53.472][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:53.472][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-05 18:19:53.472][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-05 18:19:53.473][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-05 18:19:53.473][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-05 18:19:53.474][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-05 18:19:53.474][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-05 18:19:53.474][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-05 18:19:53.475][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-05 18:19:53.475][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-05 18:19:53.475][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-05 18:19:53.476][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-05 18:19:53.476][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-05 18:19:53.476][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-05 18:19:53.477][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-05 18:19:53.477][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-05 18:19:53.477][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-05 18:19:53.478][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-05 18:19:53.478][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-05 18:19:53.479][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.479][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.479][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[2025-02-05 18:19:53.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.481][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[2025-02-05 18:19:53.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.482][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[2025-02-05 18:19:53.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.484][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[2025-02-05 18:19:53.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.485][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[2025-02-05 18:19:53.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.487][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[2025-02-05 18:19:53.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.488][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[2025-02-05 18:19:53.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.490][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[2025-02-05 18:19:53.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.491][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[2025-02-05 18:19:53.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.493][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[2025-02-05 18:19:53.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.494][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[2025-02-05 18:19:53.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.496][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[2025-02-05 18:19:53.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.497][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[2025-02-05 18:19:53.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.499][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[2025-02-05 18:19:53.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.500][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[2025-02-05 18:19:53.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.502][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[2025-02-05 18:19:53.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.503][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[2025-02-05 18:19:53.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-05 18:19:53.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.505][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[2025-02-05 18:19:53.506][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-05 18:19:53.506][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-05 18:19:53.507][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.507][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.507][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.507][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-05 18:19:53.508][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.508][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.508][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.508][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-05 18:19:53.509][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-05 18:19:53.509][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-05 18:19:53.509][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.509][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-05 18:19:53.510][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-05 18:19:53.511][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-05 18:19:53.511][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-05 18:19:53.511][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-05 18:19:53.511][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-05 18:19:53.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.511][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.511][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-05 18:19:53.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-05 18:19:53.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-05 18:19:53.512][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-05 18:19:53.512][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 18:19:53.512][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-05 18:19:53.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-05 18:19:53.513][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-05 18:19:53.513][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-05 18:19:53.513][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-05 18:19:53.513][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-05 18:19:53.514][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-05 18:19:53.514][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-05 18:19:53.515][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-05 18:19:53.515][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-05 18:19:53.518][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-05 18:19:53.518][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-05 18:19:53.519][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-05 18:19:53.520][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-05 18:19:53.520][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-05 18:19:53.520][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-05 18:19:53.521][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:53.521][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-05 18:19:53.521][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-05 18:19:53.521][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-05 18:19:53.522][biodb::testThat]
biodb.INFO [2025-02-05 18:19:53.522][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-02-05 18:19:53.522][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-05 18:19:53.522][biodb::testThat]
biodb.DEBUG[2025-02-05 18:19:53.523][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-05 18:19:53.524][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:53.525][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-05 18:19:53.525][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:53.525][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-05 18:19:53.526][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-05 18:19:53.527][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-05 18:19:53.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-02-05 18:19:53.528][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-05 18:19:53.528][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-02-05 18:19:53.529][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-02-05 18:19:53.529][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-05 18:19:53.530][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-02-05 18:19:53.530][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-05 18:19:53.530][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-05 18:19:53.531][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-05 18:19:53.531][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-05 18:19:53.531][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-05 18:19:53.531][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-05 18:19:53.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:53.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:53.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:53.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:53.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:53.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:53.534][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[2025-02-05 18:19:53.535][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-02-05 18:19:53.535][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-05 18:19:53.536][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-05 18:19:53.536][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-02-05 18:19:54.816][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-02-05 18:19:55.900][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-05 18:19:55.901][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-02-05 18:19:55.902][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-02-05 18:19:55.903][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-02-05 18:19:55.903][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-05 18:19:55.903][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-05 18:19:55.904][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-05 18:19:55.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-05 18:19:55.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:55.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:55.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:55.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:55.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:55.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-05 18:19:55.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.909][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.909][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.911][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:55.911][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:55.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.911][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-05 18:19:55.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-05 18:19:55.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.913][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:55.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:55.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.913][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.914][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-05 18:19:55.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-05 18:19:55.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-05 18:19:55.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-05 18:19:55.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.915][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.916][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-05 18:19:55.916][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-05 18:19:55.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.916][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.917][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:55.917][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:55.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.917][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.918][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:55.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-05 18:19:55.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.919][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:55.919][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:55.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.919][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.920][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-05 18:19:55.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-05 18:19:55.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.921][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:55.921][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:55.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.921][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:55.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-05 18:19:55.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.923][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:55.923][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:55.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.923][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-05 18:19:55.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-05 18:19:55.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.925][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:55.925][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:55.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.925][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.926][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-05 18:19:55.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-05 18:19:55.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.927][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:55.927][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:55.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.927][ef$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.928][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-05 18:19:55.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-05 18:19:55.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:55.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:55.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:55.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:55.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-05 18:19:55.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-05 18:19:55.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-05 18:19:55.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-05 18:19:55.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-05 18:19:55.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-05 18:19:55.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-05 18:19:55.938][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-02-05 18:19:55.939][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-05 18:19:55.939][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-05 18:19:55.939][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-05 18:19:55.940][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-05 18:19:55.940][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-05 18:19:55.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-05 18:19:55.940][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-05 18:19:55.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-05 18:19:55.941][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-05 18:19:55.941][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 362 ]
>
> proc.time()
user system elapsed
4.644 0.310 18.088
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.763 | 0.299 | 2.501 | |
| ChebiEntry | 0.102 | 0.005 | 0.108 | |