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This page was generated on 2025-11-17 11:40 -0500 (Mon, 17 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4826
lconwaymacOS 12.7.6 Montereyx86_64R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences" 4491
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4562
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 208/2325HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.17.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-11-16 13:40 -0500 (Sun, 16 Nov 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: 80ee611
git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  YES
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on kjohnson3

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.

raw results


Summary

Package: biodbChebi
Version: 1.17.0
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_1.17.0.tar.gz
StartedAt: 2025-11-16 18:44:13 -0500 (Sun, 16 Nov 2025)
EndedAt: 2025-11-16 18:44:46 -0500 (Sun, 16 Nov 2025)
EllapsedTime: 32.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### 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_1.17.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-11-04 r88984)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.17.0’
* 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

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.17.0’
** 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)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R Under development (unstable) (2025-11-04 r88984) -- "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 [2025-11-16 18:44:35.845][biodb::testContext]
biodb.INFO [2025-11-16 18:44:35.846][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:35.847][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-16 18:44:35.847][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:35.847][biodb::testContext]
biodb.INFO [2025-11-16 18:44:35.850][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:35.851][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:35.854][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:35.854][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 18:44:35.854][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 18:44:35.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.855][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 18:44:35.862][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 18:44:35.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.863][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 18:44:35.864][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 18:44:35.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.870][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 18:44:35.870][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 18:44:35.875][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 18:44:35.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.876][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 18:44:35.877][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 18:44:35.877][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 18:44:35.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.878][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 18:44:35.878][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 18:44:35.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.880][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 18:44:35.880][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 18:44:35.880][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 18:44:35.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.881][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 18:44:35.882][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 18:44:35.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.883][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 18:44:35.883][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 18:44:35.883][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 18:44:35.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.884][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:35.885][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 18:44:35.885][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 18:44:35.885][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 18:44:35.886][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 18:44:35.886][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 18:44:35.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.887][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 18:44:35.887][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 18:44:35.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.889][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 18:44:35.889][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 18:44:35.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.890][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 18:44:35.890][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 18:44:35.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.891][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 18:44:35.891][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 18:44:35.892][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 18:44:35.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.893][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:35.893][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 18:44:35.900][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 18:44:35.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.901][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 18:44:35.901][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 18:44:35.901][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 18:44:35.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.904][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 18:44:35.915][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.920][self$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[2025-11-16 18:44:35.921][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.921][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:35.921][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.922][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.922][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.922][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.922][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:35.923][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:35.923][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.923][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:35.924][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:35.925][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:35.925][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.925][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:35.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.926][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.926][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.926][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:35.927][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:35.927][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.927][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.928][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 18:44:35.928][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.929][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:35.929][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.929][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:35.929][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.930][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.930][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.930][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.930][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:35.933][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:35.933][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.934][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 18:44:35.934][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:35.934][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.934][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:35.935][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.936][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.936][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:35.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.937][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.937][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.938][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:35.938][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:35.938][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.939][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.939][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 18:44:35.940][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.940][self$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[2025-11-16 18:44:35.940][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.941][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:35.941][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.941][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.942][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.942][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.942][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:35.943][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:35.943][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.943][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 18:44:35.944][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:35.944][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.944][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.945][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.945][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:35.945][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.946][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:35.946][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.946][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.947][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.947][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.947][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:35.947][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:35.948][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.948][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.948][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 18:44:35.949][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.949][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:35.950][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.950][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:35.950][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.951][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.951][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.951][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.952][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:35.952][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:35.952][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.952][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 18:44:35.953][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:35.953][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.953][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:35.954][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.954][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:35.954][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.955][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:35.955][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:35.955][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:35.956][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:35.956][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.956][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:35.956][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:35.957][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:35.957][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:35.959][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:35.959][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:35.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:35.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:35.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:35.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:35.979][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 18:44:35.980][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 18:44:35.981][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 18:44:35.981][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 18:44:35.982][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:35.982][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 18:44:35.982][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:35.985][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:35.986][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 18:44:35.986][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 18:44:35.986][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:35.987][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 18:44:35.987][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:35.988][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:35.988][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 18:44:35.988][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 18:44:35.989][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 18:44:35.989][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 18:44:35.990][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:35.990][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 18:44:35.991][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 18:44:35.991][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 18:44:35.991][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 18:44:35.992][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 18:44:35.992][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 18:44:35.993][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 18:44:35.993][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 18:44:35.994][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 18:44:35.994][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 18:44:35.995][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 18:44:35.995][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 18:44:35.996][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 18:44:35.996][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 18:44:35.997][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 18:44:35.997][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 18:44:35.998][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 18:44:35.998][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 18:44:35.999][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 18:44:35.999][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 18:44:36.000][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 18:44:36.000][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 18:44:36.001][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 18:44:36.001][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 18:44:36.001][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 18:44:36.002][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 18:44:36.002][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 18:44:36.003][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 18:44:36.003][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 18:44:36.004][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 18:44:36.004][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 18:44:36.005][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 18:44:36.005][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 18:44:36.006][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 18:44:36.006][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 18:44:36.007][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 18:44:36.007][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 18:44:36.008][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 18:44:36.008][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 18:44:36.009][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 18:44:36.009][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 18:44:36.010][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 18:44:36.010][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 18:44:36.010][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 18:44:36.011][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 18:44:36.011][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 18:44:36.012][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 18:44:36.012][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:36.013][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:36.013][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 18:44:36.013][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 18:44:36.014][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 18:44:36.014][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 18:44:36.015][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 18:44:36.015][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 18:44:36.015][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 18:44:36.016][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 18:44:36.016][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 18:44:36.017][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 18:44:36.017][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 18:44:36.017][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 18:44:36.018][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 18:44:36.018][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 18:44:36.019][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 18:44:36.021][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 18:44:36.022][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:36.023][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:36.023][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.024][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.024][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.DEBUG[2025-11-16 18:44:36.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.048][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.DEBUG[2025-11-16 18:44:36.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:36.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:36.056][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:36.059][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 18:44:36.060][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:36.060][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 18:44:36.060][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:36.061][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:36.061][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:36.061][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:36.062][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:36.062][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 18:44:36.062][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 18:44:36.063][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:36.063][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:36.063][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 18:44:36.063][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 18:44:36.064][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:36.065][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:36.065][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:36.065][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:36.065][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 18:44:36.065][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:36.065][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:36.066][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:36.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:36.066][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:36.067][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:36.067][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 18:44:36.067][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 18:44:36.067][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:36.068][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:36.068][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:36.068][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 18:44:36.068][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 18:44:36.070][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:36.071][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:36.071][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 18:44:36.072][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:36.072][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:36.073][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:36.083][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 18:44:36.091][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 18:44:36.095][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.095][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-11-16 18:44:36.095][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.096][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:36.098][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-16 18:44:36.103][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:36.104][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:36.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:36.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:36.118][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.118][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.119][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.125][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.134][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.135][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.136][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.136][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.137][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.138][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.139][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.141][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.142][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.145][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.145][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.147][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:36.147][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.148][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.148][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:36.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.150][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.151][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.160][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.160][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.162][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:36.163][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.163][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.164][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:36.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.165][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.166][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.166][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:36.190][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-16 18:44:36.191][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.192][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.234][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-16 18:44:36.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-16 18:44:36.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.236][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-16 18:44:36.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-16 18:44:36.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.268][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.268][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.269][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.276][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.277][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.277][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.278][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.286][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.287][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.287][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.288][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.297][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.297][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.298][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.298][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.307][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.307][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.308][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.320][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.324][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.326][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.328][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.328][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.329][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.329][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.334][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.336][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.337][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.337][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.337][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.342][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.343][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.345][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.346][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.346][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.347][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.351][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.353][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.355][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.355][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.356][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.365][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.367][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.368][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.376][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.377][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.377][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.381][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.381][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.382][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.384][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.384][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.384][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.386][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.387][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.388][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.388][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.389][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.390][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.391][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.391][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.393][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.393][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.394][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.395][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.396][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.397][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.398][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.398][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.400][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.401][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.405][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.405][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.407][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.407][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.408][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:36.411][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.411][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-16 18:44:36.411][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.411][biodb::testThat]
biodb.DEBUG[2025-11-16 18:44:36.416][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-16 18:44:36.420][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:36.422][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:36.424][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-16 18:44:36.424][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:36.432][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:36.432][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:36.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:36.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:36.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:36.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:36.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:36.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:36.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:36.436][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.437][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.437][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.445][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:36.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:36.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.450][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.451][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.451][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.452][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:36.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:36.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.453][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.453][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.456][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.456][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.457][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.457][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.458][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.458][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.459][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.459][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:36.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.460][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:36.461][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.461][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.462][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:36.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.463][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.463][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.464][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.465][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.465][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.466][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.466][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.467][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:36.468][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.468][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:36.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:36.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.470][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.470][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.470][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.471][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:36.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:36.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:36.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:36.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:36.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:36.483][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-16 18:44:36.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-16 18:44:36.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-16 18:44:36.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-16 18:44:36.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-16 18:44:36.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-16 18:44:36.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-16 18:44:36.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:36.497][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.497][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-16 18:44:36.498][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.498][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:36.499][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.500][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.500][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:36.501][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-16 18:44:36.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.514][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:36.516][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-16 18:44:36.519][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 18:44:36.525][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:36.527][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 18:44:36.528][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:36.537][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".
fscache.INFO [2025-11-16 18:44:36.547][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:36.549][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:36.549][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:36.550][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-16 18:44:36.555][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.555][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:36.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.556][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.556][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.556][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.557][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:36.559][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.559][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-11-16 18:44:36.559][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.560][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:36.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.571][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:36.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:36.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:36.596][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".
fscache.INFO [2025-11-16 18:44:36.597][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:36.598][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:36.598][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-16 18:44:36.605][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.605][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-11-16 18:44:36.606][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.606][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:36.618][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.626][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.629][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.633][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.637][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-16 18:44:36.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-16 18:44:36.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.638][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-16 18:44:36.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-16 18:44:36.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:36.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:36.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:36.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:36.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.655][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-16 18:44:36.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.657][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-16 18:44:36.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-16 18:44:36.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:36.658][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-16 18:44:36.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-16 18:44:36.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:36.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:36.663][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.663][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-16 18:44:36.664][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.664][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.667][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.668][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-16 18:44:36.668][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.668][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.671][biodb::testThat]
biodb.INFO [2025-11-16 18:44:36.671][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-16 18:44:36.672][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:36.672][biodb::testThat]
biodb.DEBUG[2025-11-16 18:44:36.673][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-16 18:44:37.489][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-16 18:44:38.129][biodb::testThat]
biodb.INFO [2025-11-16 18:44:38.129][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-16 18:44:38.133][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:38.134][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:38.137][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.137][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.138][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.139][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:38.140][biodb::testThat]
biodb.INFO [2025-11-16 18:44:38.140][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-11-16 18:44:38.141][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:38.141][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:38.145][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:38.187][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".
fscache.INFO [2025-11-16 18:44:38.188][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:38.190][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:38.190][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:38.229][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".
fscache.INFO [2025-11-16 18:44:38.230][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:38.232][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:38.232][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-16 18:44:38.238][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 18:44:38.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 18:44:38.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.245][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:38.249][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".
fscache.INFO [2025-11-16 18:44:38.250][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:38.251][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 18:44:38.252][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.253][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.257][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-16 18:44:38.280][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.281][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.282][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-16 18:44:38.283][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.283][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.284][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.288][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.TRACE[2025-11-16 18:44:38.289][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.290][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.290][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.292][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.293][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.293][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.294][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.295][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.297][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.298][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.299][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.301][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.301][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.302][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.303][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.304][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.304][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.305][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.305][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.305][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.306][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.307][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.307][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.311][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.312][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.313][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.313][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.315][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.315][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.316][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.316][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.317][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.317][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.318][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.318][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.330][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-16 18:44:38.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:38.337][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:38.338][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:38.339][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 18:44:38.340][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.357][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-16 18:44:38.358][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.358][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.359][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-16 18:44:38.360][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.360][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.361][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.365][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.365][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.366][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.367][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.367][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.370][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.370][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.372][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.373][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.373][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.374][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.374][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.375][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.379][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.379][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.380][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.380][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.381][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.382][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.383][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.383][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.385][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.385][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.385][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.386][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.387][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.387][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.388][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.389][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.390][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.390][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.402][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-16 18:44:38.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:38.416][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".
fscache.INFO [2025-11-16 18:44:38.418][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:38.419][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:38.419][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.424][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:38.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.431][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-16 18:44:38.431][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.432][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.433][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-16 18:44:38.433][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.433][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.434][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.437][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.TRACE[2025-11-16 18:44:38.438][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.439][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.439][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.441][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.441][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.442][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.442][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.442][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.443][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.444][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.444][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.445][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.445][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.445][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.446][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.447][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.448][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.448][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.449][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.449][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.453][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.453][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.456][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.457][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.457][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.458][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.459][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.460][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.472][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-16 18:44:38.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.482][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-16 18:44:38.482][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.483][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.485][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-16 18:44:38.485][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.485][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.486][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.492][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.493][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.493][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.494][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.496][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.496][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.496][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.497][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.497][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.498][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.498][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.498][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.499][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.499][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.499][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.500][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.501][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.501][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.502][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.502][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.503][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.504][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.504][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.504][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.506][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.506][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.507][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.507][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.508][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.509][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.509][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.509][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.524][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-16 18:44:38.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.534][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[2025-11-16 18:44:38.534][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-16 18:44:38.535][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.535][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.537][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-16 18:44:38.538][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.538][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.539][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.543][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[2025-11-16 18:44:38.544][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.545][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.546][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.547][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.547][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.548][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.548][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.549][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.549][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.549][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.550][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.551][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.551][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.551][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.552][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.552][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.552][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.553][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.554][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.554][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.555][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.557][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.557][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.558][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.558][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.568][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.568][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.569][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.581][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-16 18:44:38.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.591][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-16 18:44:38.591][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.592][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.594][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-16 18:44:38.594][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.595][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.595][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.601][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.601][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.602][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.604][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.604][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.608][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.610][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.610][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.611][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.611][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.615][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.615][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.616][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.618][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.618][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.618][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.620][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.620][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.621][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.621][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.623][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.623][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.624][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.624][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.626][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.628][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.628][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.629][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.630][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.631][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.631][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.632][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.633][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.633][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.634][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.634][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.638][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.650][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-16 18:44:38.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.658][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-16 18:44:38.659][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.659][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.661][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-16 18:44:38.662][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.662][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.662][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.663][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.666][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:38.667][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.668][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.670][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.670][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.670][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.671][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.672][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.673][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.673][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.675][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.675][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.675][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.676][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.677][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.677][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.678][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.680][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.680][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.681][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.681][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.682][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.686][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.692][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.693][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.695][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.695][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.696][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.698][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.698][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.699][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.699][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.700][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.701][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.701][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.702][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.703][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.703][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.704][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.704][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.717][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-16 18:44:38.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.724][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-16 18:44:38.725][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.725][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.730][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-16 18:44:38.731][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.731][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.732][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.740][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.740][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.742][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.742][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.743][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.744][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.744][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.745][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.745][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.746][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.747][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.749][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.749][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.750][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.750][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.751][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.752][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.752][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.753][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.753][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.754][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.754][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.755][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.756][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.757][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.761][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.761][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.762][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.763][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.764][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.764][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.766][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.766][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.766][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.785][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-16 18:44:38.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.793][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-16 18:44:38.794][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.794][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.796][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-16 18:44:38.796][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.797][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.797][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.801][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:38.802][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.803][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.804][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.805][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.805][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.807][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.807][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.808][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.808][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.809][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.809][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.813][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.813][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.815][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.815][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.817][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.818][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.818][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.819][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.819][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.819][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.820][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.821][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.821][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.822][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.824][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.824][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.825][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.826][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.827][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.827][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.828][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.829][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.830][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.845][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-16 18:44:38.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.855][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.856][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-16 18:44:38.857][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.857][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.859][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-16 18:44:38.859][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.860][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.860][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.865][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.865][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.866][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.868][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.868][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.868][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.870][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.870][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.871][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.871][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.873][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.873][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.875][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.875][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.875][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.877][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.878][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.878][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.878][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.879][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.879][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.880][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.881][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.883][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.883][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.885][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.889][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.891][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.892][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.893][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.908][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-16 18:44:38.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.916][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.916][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-16 18:44:38.917][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.917][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.919][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-16 18:44:38.919][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.920][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.920][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.924][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:38.925][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.925][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.926][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.930][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.931][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.932][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.932][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.933][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.933][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.934][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.935][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.936][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.936][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.938][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.938][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.940][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.940][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.941][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.941][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.941][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.942][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:38.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.943][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.944][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.944][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:38.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.945][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.946][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.947][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:38.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:38.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.948][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.948][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.949][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:38.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:38.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.950][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.950][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.951][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:38.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:38.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.967][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-16 18:44:38.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:38.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:38.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:38.976][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-16 18:44:38.976][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:38.977][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:38.979][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-16 18:44:38.979][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:38.980][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:38.980][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:38.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:38.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:38.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:38.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:38.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:38.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:38.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:38.986][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.986][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.987][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:38.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:38.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.988][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.989][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:38.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:38.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.991][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.991][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.992][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.992][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:38.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:38.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.993][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.994][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.994][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:38.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:38.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.996][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.996][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.997][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:38.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.998][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.999][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:38.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:38.999][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:38.999][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.000][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.000][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.003][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.005][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.005][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.008][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.008][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.008][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.009][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.010][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.011][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.012][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.013][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.013][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.013][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.025][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-16 18:44:39.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.033][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-16 18:44:39.033][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.033][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.035][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-16 18:44:39.038][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.038][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.039][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.044][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:39.045][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.046][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.046][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.048][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.048][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.049][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.050][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.051][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.051][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.052][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.054][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.055][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.056][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.056][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.057][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.057][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.058][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.058][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.058][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.059][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.059][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.060][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.061][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.061][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.063][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.063][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.064][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.064][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.066][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.066][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.067][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.067][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.068][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.068][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.069][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.084][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-16 18:44:39.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.092][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-16 18:44:39.092][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.092][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.093][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-16 18:44:39.094][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.094][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.094][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.099][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.100][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.101][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.101][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.102][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.102][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.103][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.104][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.106][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.106][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.107][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.107][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.108][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.108][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.108][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.109][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.109][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.110][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.113][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.114][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.116][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.116][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.117][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.119][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.119][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.119][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.120][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.122][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.122][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.123][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.125][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.125][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.139][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-16 18:44:39.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.148][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-16 18:44:39.149][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.149][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.151][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-16 18:44:39.151][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.152][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.155][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.160][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:39.161][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.162][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.164][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.164][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.165][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.165][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.167][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.167][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.167][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.168][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.169][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.169][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.171][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.171][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.172][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.173][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.174][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.174][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.174][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.175][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.177][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.177][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.178][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.179][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.179][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.180][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.180][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.181][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.182][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.183][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.184][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.185][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.204][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-16 18:44:39.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.213][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-16 18:44:39.213][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.213][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.215][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-16 18:44:39.216][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.217][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.217][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.218][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.222][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.223][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.223][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.225][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.225][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.226][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.226][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.228][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.229][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.230][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.230][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.234][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.237][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.239][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.239][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.240][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.241][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.241][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.243][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.243][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.245][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.246][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.246][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.247][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.248][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.249][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.250][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.250][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.251][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.251][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.263][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-16 18:44:39.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.275][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-16 18:44:39.276][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.276][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.278][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-16 18:44:39.278][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.279][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.279][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.284][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.TRACE[2025-11-16 18:44:39.285][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.285][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.286][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.287][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.288][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.288][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.291][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.291][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.293][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.294][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.295][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.296][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.296][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.296][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.298][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.298][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.298][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.299][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.299][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.300][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.300][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.301][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.301][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.302][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.303][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.305][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.310][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.310][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.310][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.311][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.312][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.312][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.313][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.313][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.325][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-16 18:44:39.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.333][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-16 18:44:39.333][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.334][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.335][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-16 18:44:39.336][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.337][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.340][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.342][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.342][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.346][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.348][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.348][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.349][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.349][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.351][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.351][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.351][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.352][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.354][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.356][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.357][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.358][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.359][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.359][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.360][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.360][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.361][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.361][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.363][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.364][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.364][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.366][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.367][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.368][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.369][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.370][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.370][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.372][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.372][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.373][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.373][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.392][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-16 18:44:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.399][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-16 18:44:39.400][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.400][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.402][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-16 18:44:39.402][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.402][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.403][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.407][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:39.408][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.408][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.410][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.411][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.411][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.412][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.413][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.413][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.415][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.415][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.415][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.417][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.417][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.418][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.419][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.420][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.423][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.424][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.425][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.426][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.426][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.427][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.428][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.430][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.431][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.431][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.432][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.433][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.433][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.434][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.436][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.436][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.437][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.437][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.451][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-16 18:44:39.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.463][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-16 18:44:39.463][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.464][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.465][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-16 18:44:39.466][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.466][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.467][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.472][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.473][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.474][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.474][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.475][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.475][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.477][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.477][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.477][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.478][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.479][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.479][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.480][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.481][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.482][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.483][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.484][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.484][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.485][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.485][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.485][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.486][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.487][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.487][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.489][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.489][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.490][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.491][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.492][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.492][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.492][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.494][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.494][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.495][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.513][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-16 18:44:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.524][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[2025-11-16 18:44:39.524][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-16 18:44:39.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.525][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.526][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-16 18:44:39.527][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.527][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.532][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:39.533][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.533][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.534][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.535][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.536][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.536][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.538][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.538][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.544][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.544][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.545][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.547][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.547][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.548][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.549][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.550][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.550][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.551][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.551][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.551][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.552][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.554][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.555][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.556][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.557][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.558][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.558][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.560][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.560][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.561][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.573][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-16 18:44:39.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:39.590][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:39.592][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:39.593][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:39.594][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.629][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.640][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.643][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.704][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.727][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:39.791][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:39.792][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:39.793][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-16 18:44:39.793][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:39.795][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:39.795][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:39.797][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-16 18:44:39.797][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.802][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-16 18:44:39.802][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.802][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.804][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-16 18:44:39.804][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.805][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.805][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.810][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.810][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.811][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.813][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.813][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.814][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.815][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.815][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.816][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.821][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.821][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.822][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.824][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.825][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.825][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.827][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.827][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.828][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.828][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.832][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.832][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.833][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.833][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.834][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.835][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.835][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.837][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.838][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.838][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.840][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.840][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.841][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.841][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.843][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.843][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.843][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.861][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-16 18:44:39.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.868][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:39.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:39.875][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-16 18:44:39.876][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:39.876][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:39.877][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-16 18:44:39.878][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.878][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:39.879][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:39.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.882][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:39.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.883][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.884][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.886][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.886][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.886][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.887][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:39.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.888][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.889][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.890][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.890][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.891][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:39.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:39.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.892][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.893][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.897][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.897][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:39.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.899][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.899][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:39.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.900][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.901][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.901][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.902][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:39.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:39.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.903][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.904][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.904][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.906][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.906][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:39.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:39.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.909][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.909][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.910][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.910][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:39.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.912][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.913][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:39.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:39.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:39.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:39.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:39.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.927][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-16 18:44:39.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:39.941][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:39.942][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:39.943][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:39.943][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:39.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.972][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.982][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.986][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.989][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:39.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:39.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:39.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:39.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:39.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:39.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:39.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:39.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:39.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:39.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.017][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.085][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:40.123][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.124][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.126][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-16 18:44:40.126][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.160][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.392][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:40.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:40.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:40.396][biodb::testThat]
biodb.INFO [2025-11-16 18:44:40.397][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-16 18:44:40.397][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:40.398][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:40.400][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 18:44:40.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 18:44:40.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:40.412][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.413][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.413][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 18:44:40.414][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:40.425][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.426][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.426][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 18:44:40.427][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.434][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.443][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 18:44:40.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.446][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.449][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.451][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.451][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.451][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.451][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.452][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.452][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.453][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.453][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.453][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.454][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.455][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.455][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.455][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.456][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.456][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.464][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-16 18:44:40.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.468][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[2025-11-16 18:44:40.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.471][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.471][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.472][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.472][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.473][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.473][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.474][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.475][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.475][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.476][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.476][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.477][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.481][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 18:44:40.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.488][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.489][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.489][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.489][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.490][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.490][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.491][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.491][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.492][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.492][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.492][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.493][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.493][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.494][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.497][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-16 18:44:40.497][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 18:44:40.498][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 18:44:40.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:40.534][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.535][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.535][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-16 18:44:40.536][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:40.537][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.537][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.539][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-16 18:44:40.539][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.571][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 18:44:40.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.579][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.586][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.586][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.587][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.587][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.587][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.588][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.588][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.589][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.590][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.590][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.590][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.591][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.592][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.592][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.600][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-16 18:44:40.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.604][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[2025-11-16 18:44:40.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.618][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.618][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.618][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.618][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.619][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.619][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.619][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.620][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.620][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.620][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.621][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.621][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.624][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.625][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.625][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.626][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.632][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 18:44:40.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.637][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.639][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.639][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.639][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.639][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.641][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.642][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.642][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.643][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.643][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.644][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.647][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-16 18:44:40.648][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 18:44:40.648][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 18:44:40.651][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:40.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:40.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:40.653][biodb::testThat]
biodb.INFO [2025-11-16 18:44:40.654][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-16 18:44:40.654][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:40.654][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:40.655][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 18:44:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 18:44:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:40.665][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.666][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.667][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 18:44:40.667][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.671][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:40.675][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.676][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.676][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 18:44:40.677][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.680][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.690][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 18:44:40.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.696][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.697][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.697][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.697][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.698][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.699][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.700][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.701][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.701][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.702][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.702][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.706][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-16 18:44:40.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.709][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.TRACE[2025-11-16 18:44:40.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.712][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.712][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.712][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.712][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.713][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.713][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.714][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.714][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.715][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.715][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.716][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.716][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.720][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 18:44:40.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.726][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.726][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.727][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.727][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.727][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.728][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.728][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.732][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.732][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.732][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.732][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.733][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.733][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.733][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.737][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-16 18:44:40.737][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 18:44:40.737][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 18:44:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:40.750][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.751][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.752][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-16 18:44:40.752][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:40.753][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.754][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.755][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-16 18:44:40.756][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.779][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 18:44:40.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.785][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.786][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.786][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.786][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.786][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.787][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.788][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.788][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.789][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.789][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.789][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.790][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.790][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.794][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-16 18:44:40.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.797][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:40.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.800][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.800][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.800][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.801][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.801][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.802][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.802][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.803][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.803][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.803][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.804][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.804][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.805][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.808][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 18:44:40.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.814][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.814][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.815][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.815][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.815][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.815][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.816][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.816][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.817][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.817][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.818][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.818][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.819][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.819][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.823][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-16 18:44:40.823][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 18:44:40.823][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 18:44:40.826][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:40.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:40.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:40.829][biodb::testThat]
biodb.INFO [2025-11-16 18:44:40.829][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-16 18:44:40.829][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:40.830][biodb::testThat]
biodb.TRACE[2025-11-16 18:44:40.831][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-16 18:44:40.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-16 18:44:40.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:40.849][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.850][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.851][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-16 18:44:40.851][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-16 18:44:40.862][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.863][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.863][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-16 18:44:40.864][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:40.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.889][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 18:44:40.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.896][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.896][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.896][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.896][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.897][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.897][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.898][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.898][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.899][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.899][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.900][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.900][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.900][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.904][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-16 18:44:40.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.908][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:40.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.911][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.911][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.911][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.911][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.912][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.913][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.913][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.914][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.914][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.914][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.914][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.915][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.915][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.915][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.919][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 18:44:40.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.926][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.926][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.926][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.926][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.927][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.927][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.927][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.928][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.928][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.929][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.930][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.930][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.934][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-16 18:44:40.934][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 18:44:40.934][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 18:44:40.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:40.954][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.955][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.955][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-16 18:44:40.959][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:40.960][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:40.961][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:40.962][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-16 18:44:40.962][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:40.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.973][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:40.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:40.983][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-16 18:44:40.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:40.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:40.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:40.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:40.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:40.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.989][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.989][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:40.989][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:40.989][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:40.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.991][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.991][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.992][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.992][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.992][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:40.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.993][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.994][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:40.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:40.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:40.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:40.997][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-16 18:44:40.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:40.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:40.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.001][FUN] Functions in observer BiodbConfig: [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[2025-11-16 18:44:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.003][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.003][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:41.004][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:41.004][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:41.004][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.005][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.012][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.013][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.013][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.014][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:41.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.017][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-16 18:44:41.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:41.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.023][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.024][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-16 18:44:41.024][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-16 18:44:41.024][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-16 18:44:41.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.025][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.026][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.027][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-16 18:44:41.027][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.028][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.028][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-16 18:44:41.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.032][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-16 18:44:41.032][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-16 18:44:41.032][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-16 18:44:41.041][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:41.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-16 18:44:41.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:41.043][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.044][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-11-16 18:44:41.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.044][biodb::testThat]
biodb.DEBUG[2025-11-16 18:44:41.045][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-16 18:44:41.045][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:41.045][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:41.046][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-16 18:44:41.047][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.047][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:41.048][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:41.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.051][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:41.052][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.052][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.053][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.054][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.054][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.055][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.055][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.055][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.056][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.056][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.057][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.058][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.058][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.058][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.059][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.059][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.059][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:41.060][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:41.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.060][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.060][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.063][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.064][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.064][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.064][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.068][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.068][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:41.068][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:41.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.069][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.069][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:41.069][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:41.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.070][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.075][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:41.081][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-16 18:44:41.081][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-16 18:44:41.084][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.084][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-16 18:44:41.084][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.086][biodb::testThat]
biodb.DEBUG[2025-11-16 18:44:41.089][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-16 18:44:41.089][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-16 18:44:41.090][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-16 18:44:41.090][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:41.091][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-16 18:44:41.092][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-16 18:44:41.094][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-16 18:44:41.094][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.094][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-16 18:44:41.095][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:41.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:41.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.099][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.100][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.101][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.102][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.102][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.102][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.103][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.103][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.104][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.104][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.105][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.105][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.106][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.106][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.107][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.108][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.109][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:41.110][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:41.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.111][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.111][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.112][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.112][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.112][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.113][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.113][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:41.114][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:41.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.114][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.114][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:41.115][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:41.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.115][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:41.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:41.133][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.133][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.134][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.136][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.136][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.136][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.137][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.138][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.138][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.139][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.139][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.140][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.141][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.141][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.145][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.146][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.147][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.148][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.148][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.148][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.150][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:41.150][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:41.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.151][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.151][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:41.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:41.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.152][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.152][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.153][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.154][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.154][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.155][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.155][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.156][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:41.157][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:41.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.157][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.157][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:41.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.158][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:41.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:41.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.159][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:41.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:41.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:41.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:41.174][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.175][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.179][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.180][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.180][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.181][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.182][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.182][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.183][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.184][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.184][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.185][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.187][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.188][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.189][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.190][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.190][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.191][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.192][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:41.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:41.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.193][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.193][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.195][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.196][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.198][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.198][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.199][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.201][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:41.201][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:41.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.202][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:41.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:41.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:41.203][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:41.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.204][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:41.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:41.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:41.224][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-16 18:44:41.225][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-16 18:44:41.225][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-16 18:44:41.230][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.230][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-11-16 18:44:41.230][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.230][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.239][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.239][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-11-16 18:44:41.239][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.240][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.242][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.243][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-11-16 18:44:41.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.243][biodb::testThat]
sched.DEBUG[2025-11-16 18:44:41.244][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:41.245][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.248][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-16 18:44:41.248][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-16 18:44:41.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:41.254][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:41.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.254][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.254][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.255][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:41.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.255][ef$get] fields variable is a list.
biodb.INFO [2025-11-16 18:44:41.256][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.256][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-16 18:44:41.257][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.258][biodb::testThat]
biodb.ERROR[2025-11-16 18:44:41.264][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-16 18:44:41.270][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-16 18:44:41.274][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 18:44:41.275][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 18:44:41.275][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 18:44:41.276][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.276][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.277][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-16 18:44:41.281][biodb::testContext]
biodb.INFO [2025-11-16 18:44:41.282][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:41.282][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-16 18:44:41.282][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:41.283][biodb::testContext]
biodb.INFO [2025-11-16 18:44:41.284][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:41.284][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:41.286][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.287][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 18:44:41.287][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.288][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[2025-11-16 18:44:41.288][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 18:44:41.289][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.290][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 18:44:41.290][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.292][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 18:44:41.292][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 18:44:41.292][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.297][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 18:44:41.297][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 18:44:41.297][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.299][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 18:44:41.299][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.300][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 18:44:41.301][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 18:44:41.301][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 18:44:41.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.302][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 18:44:41.303][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.304][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 18:44:41.304][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 18:44:41.305][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.306][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:41.306][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 18:44:41.307][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 18:44:41.307][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 18:44:41.307][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 18:44:41.308][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 18:44:41.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.309][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 18:44:41.309][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 18:44:41.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.311][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 18:44:41.311][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 18:44:41.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.312][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 18:44:41.313][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.314][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 18:44:41.314][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 18:44:41.315][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 18:44:41.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.316][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:41.316][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 18:44:41.331][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 18:44:41.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.333][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 18:44:41.333][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 18:44:41.334][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 18:44:41.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.335][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 18:44:41.336][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.336][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-16 18:44:41.336][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.337][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.337][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.337][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.338][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.338][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.338][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:41.339][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.339][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.339][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 18:44:41.340][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.340][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.340][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.341][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.342][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.343][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.343][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.343][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.344][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.344][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.344][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.345][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.345][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.345][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.346][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 18:44:41.346][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.347][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:41.347][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.347][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.348][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.348][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.348][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.349][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.349][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:41.350][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.351][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.351][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 18:44:41.352][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.352][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.352][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.353][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.354][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.354][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.355][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.355][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.356][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.356][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.356][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.357][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.357][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 18:44:41.358][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.358][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-16 18:44:41.358][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.359][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.359][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.359][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.359][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.360][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.360][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:41.360][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.361][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.361][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 18:44:41.361][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.361][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.362][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.362][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.362][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.363][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.363][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.363][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.364][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.364][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.364][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.364][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.365][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.365][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.365][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.365][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 18:44:41.366][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.366][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:41.366][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.367][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.367][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.367][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.367][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.368][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.368][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:41.368][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.368][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.369][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 18:44:41.369][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.369][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.370][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.370][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.370][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.370][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.371][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.371][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.371][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.371][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.371][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.372][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.372][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.372][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.372][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.373][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.373][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.373][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.374][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[2025-11-16 18:44:41.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.376][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[2025-11-16 18:44:41.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.378][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[2025-11-16 18:44:41.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.380][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[2025-11-16 18:44:41.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.382][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[2025-11-16 18:44:41.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.384][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[2025-11-16 18:44:41.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.392][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[2025-11-16 18:44:41.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.393][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 18:44:41.394][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 18:44:41.394][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 18:44:41.395][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 18:44:41.395][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:41.395][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 18:44:41.396][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:41.396][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:41.397][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 18:44:41.397][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 18:44:41.397][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:41.398][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 18:44:41.398][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:41.398][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:41.399][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 18:44:41.399][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 18:44:41.400][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 18:44:41.400][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 18:44:41.400][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:41.401][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 18:44:41.401][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 18:44:41.401][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 18:44:41.402][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 18:44:41.402][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 18:44:41.402][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 18:44:41.403][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 18:44:41.403][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 18:44:41.404][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 18:44:41.404][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 18:44:41.404][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 18:44:41.405][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 18:44:41.405][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 18:44:41.405][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 18:44:41.406][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 18:44:41.406][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 18:44:41.409][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 18:44:41.409][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 18:44:41.410][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 18:44:41.410][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 18:44:41.411][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 18:44:41.411][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 18:44:41.411][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 18:44:41.412][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 18:44:41.412][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 18:44:41.412][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 18:44:41.413][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 18:44:41.413][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 18:44:41.413][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 18:44:41.414][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 18:44:41.414][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 18:44:41.415][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 18:44:41.415][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 18:44:41.415][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 18:44:41.416][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 18:44:41.416][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 18:44:41.416][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 18:44:41.417][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 18:44:41.417][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 18:44:41.417][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 18:44:41.418][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 18:44:41.418][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 18:44:41.419][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 18:44:41.419][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 18:44:41.419][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 18:44:41.420][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 18:44:41.420][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 18:44:41.420][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:41.421][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:41.421][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 18:44:41.421][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 18:44:41.422][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 18:44:41.422][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 18:44:41.423][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 18:44:41.423][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 18:44:41.423][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 18:44:41.424][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 18:44:41.424][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 18:44:41.424][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 18:44:41.425][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 18:44:41.425][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 18:44:41.425][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 18:44:41.426][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 18:44:41.426][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 18:44:41.426][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 18:44:41.427][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:41.427][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.428][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.428][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.428][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[2025-11-16 18:44:41.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.430][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[2025-11-16 18:44:41.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.433][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[2025-11-16 18:44:41.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.438][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[2025-11-16 18:44:41.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.440][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[2025-11-16 18:44:41.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.441][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[2025-11-16 18:44:41.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.443][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[2025-11-16 18:44:41.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.444][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[2025-11-16 18:44:41.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.446][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[2025-11-16 18:44:41.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.452][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.DEBUG[2025-11-16 18:44:41.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.455][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:41.455][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 18:44:41.456][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.456][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.456][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.456][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.457][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.457][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.457][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.457][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 18:44:41.458][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 18:44:41.458][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.458][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 18:44:41.459][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.460][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.460][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.460][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.460][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 18:44:41.460][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.461][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.461][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.461][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.461][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.462][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 18:44:41.462][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 18:44:41.462][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.462][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.462][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.463][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 18:44:41.463][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 18:44:41.463][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:41.464][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:41.464][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 18:44:41.464][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:41.465][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:41.465][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:41.466][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 18:44:41.468][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 18:44:41.469][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.469][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-11-16 18:44:41.469][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.469][biodb::testThat]
sched.DEBUG[2025-11-16 18:44:41.470][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 18:44:41.471][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.473][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 18:44:41.473][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:41.474][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".
fscache.INFO [2025-11-16 18:44:41.475][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.476][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-16 18:44:41.476][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:41.481][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".
fscache.INFO [2025-11-16 18:44:41.482][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.482][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-16 18:44:41.483][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.487][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[2025-11-16 18:44:41.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.496][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".
sched.DEBUG[2025-11-16 18:44:41.498][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".
fscache.INFO [2025-11-16 18:44:41.499][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.499][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-16 18:44:41.500][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:41.508][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".
fscache.INFO [2025-11-16 18:44:41.509][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.510][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-16 18:44:41.510][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.518][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".
sched.DEBUG[2025-11-16 18:44:41.519][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".
fscache.INFO [2025-11-16 18:44:41.520][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.521][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-16 18:44:41.521][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:41.527][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".
fscache.INFO [2025-11-16 18:44:41.528][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.529][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-16 18:44:41.529][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-16 18:44:41.534][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".
fscache.INFO [2025-11-16 18:44:41.535][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.536][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-16 18:44:41.536][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.540][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.INFO [2025-11-16 18:44:41.543][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.543][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-11-16 18:44:41.543][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.544][biodb::testThat]
sched.DEBUG[2025-11-16 18:44:41.545][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".
fscache.INFO [2025-11-16 18:44:41.546][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.547][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-16 18:44:41.547][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.548][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.551][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".
sched.DEBUG[2025-11-16 18:44:41.552][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".
fscache.INFO [2025-11-16 18:44:41.553][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.554][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-16 18:44:41.554][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.557][FUN] Functions in observer BiodbConfig: [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 [2025-11-16 18:44:41.559][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 18:44:41.559][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 18:44:41.560][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 18:44:41.560][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.560][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.561][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.561][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.INFO [2025-11-16 18:44:41.562][biodb::testContext]
biodb.INFO [2025-11-16 18:44:41.563][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:41.563][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-16 18:44:41.563][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:41.564][biodb::testContext]
biodb.INFO [2025-11-16 18:44:41.564][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:41.565][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:41.566][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.567][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 18:44:41.567][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.568][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 18:44:41.569][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.570][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 18:44:41.570][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.571][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 18:44:41.571][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 18:44:41.572][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.573][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 18:44:41.573][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 18:44:41.573][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.574][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 18:44:41.574][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.575][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.DEBUG[2025-11-16 18:44:41.575][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 18:44:41.576][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 18:44:41.576][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 18:44:41.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.577][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 18:44:41.577][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.578][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[2025-11-16 18:44:41.578][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 18:44:41.579][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 18:44:41.579][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.580][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:41.580][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 18:44:41.580][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 18:44:41.586][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 18:44:41.586][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 18:44:41.587][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 18:44:41.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.588][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[2025-11-16 18:44:41.588][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 18:44:41.588][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 18:44:41.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.590][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 18:44:41.590][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 18:44:41.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.591][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[2025-11-16 18:44:41.591][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 18:44:41.592][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.593][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 18:44:41.593][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 18:44:41.594][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 18:44:41.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.594][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[2025-11-16 18:44:41.595][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:41.595][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 18:44:41.609][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 18:44:41.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.610][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 18:44:41.611][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 18:44:41.611][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 18:44:41.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.612][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 18:44:41.613][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.613][self$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[2025-11-16 18:44:41.613][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.614][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.614][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.614][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.614][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.615][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.615][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:41.615][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.616][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.616][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 18:44:41.616][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.616][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:41.617][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.618][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.618][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.618][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.618][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.619][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.619][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.619][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.619][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.620][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.620][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.620][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.620][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 18:44:41.621][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.621][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:41.622][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.622][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.622][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.622][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.623][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.623][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.623][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:41.623][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.624][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.624][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 18:44:41.624][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:41.625][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.626][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.626][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.626][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.626][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.627][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.627][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.627][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.628][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.628][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.628][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.628][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 18:44:41.629][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.629][self$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[2025-11-16 18:44:41.629][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.630][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.630][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.630][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.631][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.631][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.631][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:41.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.632][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.632][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 18:44:41.632][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.632][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.635][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.636][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.636][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.636][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.637][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.637][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.637][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.638][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.638][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.638][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.638][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.639][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.639][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 18:44:41.640][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.640][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:41.640][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.640][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.641][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.641][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.641][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.641][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.642][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:41.642][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.642][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.642][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 18:44:41.643][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.643][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.643][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.644][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.644][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.645][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.646][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.646][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.646][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.646][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.647][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.647][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.647][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.650][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.666][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 18:44:41.667][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 18:44:41.667][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 18:44:41.668][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 18:44:41.668][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:41.669][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 18:44:41.669][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:41.670][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:41.670][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 18:44:41.671][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 18:44:41.671][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:41.672][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 18:44:41.672][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:41.673][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:41.673][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 18:44:41.674][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 18:44:41.674][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 18:44:41.674][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 18:44:41.675][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:41.675][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 18:44:41.676][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 18:44:41.676][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 18:44:41.677][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 18:44:41.677][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 18:44:41.677][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 18:44:41.678][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 18:44:41.678][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 18:44:41.679][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 18:44:41.679][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 18:44:41.679][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 18:44:41.680][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 18:44:41.680][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 18:44:41.681][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 18:44:41.681][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 18:44:41.682][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 18:44:41.682][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 18:44:41.682][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 18:44:41.683][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 18:44:41.683][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 18:44:41.684][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 18:44:41.684][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 18:44:41.685][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 18:44:41.685][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 18:44:41.685][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 18:44:41.686][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 18:44:41.686][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 18:44:41.686][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 18:44:41.687][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 18:44:41.687][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 18:44:41.688][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 18:44:41.688][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 18:44:41.688][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 18:44:41.689][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 18:44:41.689][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 18:44:41.689][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 18:44:41.690][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 18:44:41.690][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 18:44:41.691][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 18:44:41.691][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 18:44:41.691][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 18:44:41.692][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 18:44:41.692][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 18:44:41.692][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 18:44:41.693][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 18:44:41.693][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 18:44:41.694][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 18:44:41.694][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:41.694][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:41.695][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 18:44:41.695][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 18:44:41.696][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 18:44:41.696][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 18:44:41.697][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 18:44:41.697][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 18:44:41.697][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 18:44:41.698][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 18:44:41.698][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 18:44:41.699][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 18:44:41.699][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 18:44:41.699][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 18:44:41.700][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 18:44:41.700][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 18:44:41.700][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 18:44:41.701][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 18:44:41.701][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:41.702][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.702][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.703][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.703][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[2025-11-16 18:44:41.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.704][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[2025-11-16 18:44:41.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.706][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[2025-11-16 18:44:41.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.708][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[2025-11-16 18:44:41.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.709][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[2025-11-16 18:44:41.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.711][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[2025-11-16 18:44:41.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.713][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[2025-11-16 18:44:41.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.716][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[2025-11-16 18:44:41.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.719][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[2025-11-16 18:44:41.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.726][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[2025-11-16 18:44:41.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.730][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[2025-11-16 18:44:41.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.731][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[2025-11-16 18:44:41.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.733][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[2025-11-16 18:44:41.734][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:41.734][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 18:44:41.735][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.735][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.736][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.736][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.737][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.737][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 18:44:41.738][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 18:44:41.738][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.738][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 18:44:41.739][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 18:44:41.740][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.740][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.740][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.740][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.741][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 18:44:41.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.741][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.742][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.743][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 18:44:41.743][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 18:44:41.743][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.743][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.744][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.744][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 18:44:41.744][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 18:44:41.744][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:41.745][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:41.746][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 18:44:41.747][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:41.747][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:41.748][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:41.749][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 18:44:41.751][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 18:44:41.752][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.752][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-16 18:44:41.753][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.753][biodb::testThat]
sched.DEBUG[2025-11-16 18:44:41.754][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 18:44:41.755][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.757][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 18:44:41.757][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:41.759][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-16 18:44:41.760][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.761][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-16 18:44:41.761][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-16 18:44:41.765][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 18:44:41.766][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 18:44:41.766][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 18:44:41.766][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.767][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.767][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-16 18:44:41.769][biodb::testContext]
biodb.INFO [2025-11-16 18:44:41.769][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:41.770][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-16 18:44:41.770][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-16 18:44:41.770][biodb::testContext]
biodb.INFO [2025-11-16 18:44:41.771][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:41.772][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:41.773][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.773][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-16 18:44:41.774][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.774][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[2025-11-16 18:44:41.775][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-16 18:44:41.775][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.776][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-16 18:44:41.776][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.777][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[2025-11-16 18:44:41.777][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-16 18:44:41.778][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-16 18:44:41.778][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.779][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-16 18:44:41.779][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-16 18:44:41.779][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.780][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[2025-11-16 18:44:41.780][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-16 18:44:41.781][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.782][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-16 18:44:41.782][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-16 18:44:41.782][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-16 18:44:41.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.783][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[2025-11-16 18:44:41.783][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-16 18:44:41.783][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.784][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-16 18:44:41.784][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-16 18:44:41.785][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-16 18:44:41.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.786][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:41.786][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-16 18:44:41.786][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-16 18:44:41.787][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-16 18:44:41.787][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-16 18:44:41.787][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-16 18:44:41.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.793][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-16 18:44:41.793][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-16 18:44:41.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.794][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-16 18:44:41.795][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-16 18:44:41.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.796][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-16 18:44:41.796][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-16 18:44:41.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.797][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-16 18:44:41.797][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-16 18:44:41.798][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-16 18:44:41.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.799][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-16 18:44:41.799][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-16 18:44:41.808][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-16 18:44:41.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.810][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-16 18:44:41.810][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-16 18:44:41.811][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-16 18:44:41.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.812][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-16 18:44:41.813][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.813][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-16 18:44:41.813][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.814][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.814][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.814][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.815][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.815][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.815][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:41.816][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.816][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.816][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-16 18:44:41.817][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.817][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.817][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.818][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.819][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.819][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.819][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.820][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.820][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.821][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.821][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.821][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.822][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.822][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-16 18:44:41.823][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.823][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:41.823][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.824][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.824][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.824][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.825][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.825][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.825][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:41.826][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.826][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.826][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-16 18:44:41.826][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-16 18:44:41.827][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-16 18:44:41.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.828][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.828][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.828][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.829][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.829][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.829][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.829][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.830][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.830][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.830][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.830][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.831][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-16 18:44:41.831][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.831][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-16 18:44:41.832][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.832][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.832][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.833][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.833][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.833][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.833][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-16 18:44:41.834][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.834][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.834][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-16 18:44:41.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.835][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.835][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.835][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.835][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.836][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.836][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.837][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.837][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.837][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.838][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.838][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.838][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.838][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-16 18:44:41.839][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.839][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-16 18:44:41.840][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.840][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.843][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.843][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.844][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.844][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.844][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-16 18:44:41.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.845][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.845][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-16 18:44:41.845][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.845][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.846][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.846][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-16 18:44:41.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.847][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.848][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.848][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.848][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.849][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.849][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-16 18:44:41.849][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.850][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.850][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[2025-11-16 18:44:41.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.856][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[2025-11-16 18:44:41.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.858][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.860][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[2025-11-16 18:44:41.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.862][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[2025-11-16 18:44:41.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.864][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[2025-11-16 18:44:41.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.866][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[2025-11-16 18:44:41.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.867][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[2025-11-16 18:44:41.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.868][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-16 18:44:41.869][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-16 18:44:41.869][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-16 18:44:41.870][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-16 18:44:41.870][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:41.870][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-16 18:44:41.871][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:41.871][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:41.872][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-16 18:44:41.872][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-16 18:44:41.872][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:41.873][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-16 18:44:41.873][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-16 18:44:41.873][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-16 18:44:41.874][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-16 18:44:41.874][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-16 18:44:41.875][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-16 18:44:41.875][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-16 18:44:41.875][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:41.876][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-16 18:44:41.876][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-16 18:44:41.877][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-16 18:44:41.877][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-16 18:44:41.877][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-16 18:44:41.878][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-16 18:44:41.878][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-16 18:44:41.878][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-16 18:44:41.879][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-16 18:44:41.879][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-16 18:44:41.880][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-16 18:44:41.880][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-16 18:44:41.880][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-16 18:44:41.881][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-16 18:44:41.881][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-16 18:44:41.881][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-16 18:44:41.882][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-16 18:44:41.882][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-16 18:44:41.883][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-16 18:44:41.883][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-16 18:44:41.883][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-16 18:44:41.884][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-16 18:44:41.893][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-16 18:44:41.893][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-16 18:44:41.894][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-16 18:44:41.894][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-16 18:44:41.895][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-16 18:44:41.895][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-16 18:44:41.896][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-16 18:44:41.896][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-16 18:44:41.897][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-16 18:44:41.897][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-16 18:44:41.898][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-16 18:44:41.898][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-16 18:44:41.898][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-16 18:44:41.899][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-16 18:44:41.899][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-16 18:44:41.900][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-16 18:44:41.900][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-16 18:44:41.901][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-16 18:44:41.901][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-16 18:44:41.902][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-16 18:44:41.902][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-16 18:44:41.903][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-16 18:44:41.903][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-16 18:44:41.904][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-16 18:44:41.904][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-16 18:44:41.905][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:41.905][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:41.905][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-16 18:44:41.906][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-16 18:44:41.906][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-16 18:44:41.907][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-16 18:44:41.907][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-16 18:44:41.908][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-16 18:44:41.908][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-16 18:44:41.909][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-16 18:44:41.909][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-16 18:44:41.910][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-16 18:44:41.910][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-16 18:44:41.911][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-16 18:44:41.911][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-16 18:44:41.911][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-16 18:44:41.912][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-16 18:44:41.912][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-16 18:44:41.913][initialize] This is biodb version 1.19.0.
biodb.DEBUG[2025-11-16 18:44:41.913][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-16 18:44:41.913][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.914][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.916][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.933][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[2025-11-16 18:44:41.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-16 18:44:41.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-16 18:44:41.947][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.6-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-16 18:44:41.948][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-16 18:44:41.948][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.948][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.949][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-16 18:44:41.949][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.950][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.950][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.950][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-16 18:44:41.950][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-16 18:44:41.951][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-16 18:44:41.951][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.951][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-16 18:44:41.951][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-16 18:44:41.952][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-16 18:44:41.953][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-16 18:44:41.953][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.953][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.953][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-16 18:44:41.954][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-16 18:44:41.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-16 18:44:41.954][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-16 18:44:41.954][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-16 18:44:41.954][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-16 18:44:41.955][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-16 18:44:41.955][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-16 18:44:41.955][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-16 18:44:41.955][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-16 18:44:41.955][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-16 18:44:41.956][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-16 18:44:41.956][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-16 18:44:41.957][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-16 18:44:41.957][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-16 18:44:41.958][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-16 18:44:41.958][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-16 18:44:41.959][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-16 18:44:41.961][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-16 18:44:41.961][biodb::testThat]
biodb.INFO [2025-11-16 18:44:41.962][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-16 18:44:41.962][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-16 18:44:41.962][biodb::testThat]
sched.DEBUG[2025-11-16 18:44:41.963][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-16 18:44:41.964][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.966][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-16 18:44:41.966][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-16 18:44:41.967][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".
fscache.INFO [2025-11-16 18:44:41.968][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-11-16 18:44:41.969][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-16 18:44:41.969][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.971][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-16 18:44:41.975][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-16 18:44:41.976][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-16 18:44:41.980][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-16 18:44:41.981][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-16 18:44:41.981][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-16 18:44:41.982][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-16 18:44:41.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-16 18:44:41.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:41.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:41.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:41.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:41.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:41.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-16 18:44:41.988][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.988][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.989][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:41.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:41.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.991][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.991][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.992][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.992][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-16 18:44:41.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-16 18:44:41.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.994][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.994][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.995][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.995][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-16 18:44:41.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-16 18:44:41.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.996][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-16 18:44:41.997][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-16 18:44:41.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.997][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.998][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.998][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-16 18:44:41.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:41.999][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:41.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:41.999][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:42.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.000][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-16 18:44:42.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.001][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:42.002][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:42.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.002][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.003][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-16 18:44:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-16 18:44:42.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.004][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:42.004][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:42.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.005][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:42.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-16 18:44:42.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.006][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:42.007][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:42.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.007][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-16 18:44:42.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-16 18:44:42.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.010][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:42.011][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:42.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.011][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.012][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-16 18:44:42.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-16 18:44:42.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.013][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:42.013][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:42.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.013][ef$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.014][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-16 18:44:42.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-16 18:44:42.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:42.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:42.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:42.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-16 18:44:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-16 18:44:42.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-16 18:44:42.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-16 18:44:42.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-16 18:44:42.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-16 18:44:42.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-16 18:44:42.028][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-16 18:44:42.029][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-16 18:44:42.030][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-16 18:44:42.030][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-16 18:44:42.030][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-16 18:44:42.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-16 18:44:42.031][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-16 18:44:42.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-16 18:44:42.031][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-16 18:44:42.032][FUN] Functions in observer 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 1 | PASS 357 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):

[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  5.094   0.314   6.992

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7250.2971.129
ChebiEntry0.0940.0110.106