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This page was generated on 2025-10-24 12:04 -0400 (Fri, 24 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4898
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4688
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4634
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4658
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 210/2359HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-23 14:17 -0400 (Thu, 23 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on lconway

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: 1.15.1
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_1.15.1.tar.gz
StartedAt: 2025-10-23 19:41:23 -0400 (Thu, 23 Oct 2025)
EndedAt: 2025-10-23 19:42:47 -0400 (Thu, 23 Oct 2025)
EllapsedTime: 84.1 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_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* 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/4.5-x86_64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** 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 version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-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 [2025-10-23 19:42:21.497][biodb::testContext]
biodb.INFO [2025-10-23 19:42:21.501][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:21.502][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-23 19:42:21.503][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:21.504][biodb::testContext]
biodb.INFO [2025-10-23 19:42:21.511][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:21.514][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:21.522][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:21.523][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 19:42:21.524][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 19:42:21.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.528][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 19:42:21.551][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 19:42:21.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.557][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 19:42:21.558][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 19:42:21.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.562][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 19:42:21.564][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 19:42:21.565][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 19:42:21.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.569][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 19:42:21.569][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 19:42:21.570][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 19:42:21.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.574][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 19:42:21.575][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 19:42:21.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.578][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[2025-10-23 19:42:21.579][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 19:42:21.580][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 19:42:21.582][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 19:42:21.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.587][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 19:42:21.588][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 19:42:21.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.591][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[2025-10-23 19:42:21.592][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 19:42:21.607][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 19:42:21.608][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 19:42:21.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.613][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:21.614][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 19:42:21.615][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 19:42:21.617][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 19:42:21.618][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 19:42:21.619][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 19:42:21.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.624][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 19:42:21.625][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 19:42:21.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.630][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 19:42:21.631][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 19:42:21.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.635][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 19:42:21.636][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 19:42:21.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.641][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 19:42:21.642][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 19:42:21.642][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 19:42:21.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.646][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.DEBUG[2025-10-23 19:42:21.647][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:21.649][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 19:42:21.672][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 19:42:21.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.677][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 19:42:21.678][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 19:42:21.680][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 19:42:21.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.686][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 19:42:21.731][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.751][self$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[2025-10-23 19:42:21.752][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.754][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:21.755][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.757][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.758][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.759][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.760][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:21.761][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:21.762][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.763][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 19:42:21.764][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:21.765][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.767][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.768][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:21.768][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:21.768][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:21.768][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:21.768][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:21.769][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:21.771][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.772][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.773][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:21.774][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.775][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.777][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.778][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.779][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:21.780][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:21.782][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.783][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.785][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 19:42:21.787][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.788][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:21.790][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.791][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:21.793][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.794][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.795][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.796][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.797][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:21.798][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:21.799][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.801][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 19:42:21.802][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:21.803][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.804][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.805][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:21.805][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:21.805][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:21.805][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:21.805][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:21.806][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:21.807][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.809][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:21.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.813][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.814][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:21.815][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:21.816][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.817][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.818][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 19:42:21.819][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.820][self$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[2025-10-23 19:42:21.822][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.823][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:21.824][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.825][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.826][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.828][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.829][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:21.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:21.831][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.832][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 19:42:21.834][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:21.842][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.843][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.844][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.846][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:21.847][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.849][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:21.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.853][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.854][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:21.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:21.857][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.859][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.860][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 19:42:21.863][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.864][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:21.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:21.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.870][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.873][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:21.874][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:21.875][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.877][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 19:42:21.877][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:21.879][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.880][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:21.881][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.883][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:21.884][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.885][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.886][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:21.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:21.889][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:21.890][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:21.891][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.892][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:21.893][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:21.894][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:21.896][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:21.900][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:21.900][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.902][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[2025-10-23 19:42:21.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.925][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[2025-10-23 19:42:21.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.930][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[2025-10-23 19:42:21.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.935][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[2025-10-23 19:42:21.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.941][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[2025-10-23 19:42:21.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.959][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[2025-10-23 19:42:21.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.965][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[2025-10-23 19:42:21.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.971][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[2025-10-23 19:42:21.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.977][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[2025-10-23 19:42:21.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:21.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:21.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:21.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:21.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:21.994][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 19:42:22.000][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 19:42:22.002][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 19:42:22.003][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 19:42:22.005][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:22.006][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 19:42:22.007][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:22.009][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:22.011][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 19:42:22.012][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 19:42:22.013][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:22.015][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 19:42:22.017][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:22.019][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:22.020][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 19:42:22.022][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 19:42:22.024][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 19:42:22.026][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 19:42:22.028][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:22.029][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 19:42:22.031][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 19:42:22.033][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 19:42:22.035][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 19:42:22.036][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 19:42:22.038][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 19:42:22.040][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 19:42:22.042][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 19:42:22.044][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 19:42:22.045][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 19:42:22.047][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 19:42:22.048][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 19:42:22.050][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 19:42:22.052][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 19:42:22.059][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 19:42:22.061][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 19:42:22.063][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 19:42:22.064][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 19:42:22.066][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 19:42:22.068][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 19:42:22.070][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 19:42:22.072][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 19:42:22.074][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 19:42:22.076][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 19:42:22.078][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 19:42:22.080][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 19:42:22.081][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 19:42:22.083][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 19:42:22.085][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 19:42:22.087][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 19:42:22.089][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 19:42:22.090][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 19:42:22.092][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 19:42:22.094][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 19:42:22.096][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 19:42:22.098][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 19:42:22.100][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 19:42:22.102][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 19:42:22.104][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 19:42:22.106][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 19:42:22.107][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 19:42:22.109][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 19:42:22.110][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 19:42:22.112][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 19:42:22.114][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 19:42:22.116][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 19:42:22.118][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 19:42:22.120][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:22.121][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:22.123][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 19:42:22.125][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 19:42:22.127][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 19:42:22.129][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 19:42:22.131][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 19:42:22.133][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 19:42:22.135][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 19:42:22.136][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 19:42:22.138][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 19:42:22.140][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 19:42:22.142][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 19:42:22.144][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 19:42:22.146][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 19:42:22.147][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 19:42:22.148][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 19:42:22.156][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 19:42:22.158][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:22.163][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:22.165][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.167][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.212][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[2025-10-23 19:42:22.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.220][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.275][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[2025-10-23 19:42:22.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:22.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:22.298][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:22.309][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 19:42:22.311][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:22.313][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 19:42:22.314][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:22.315][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:22.316][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:22.318][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:22.319][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:22.320][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 19:42:22.321][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 19:42:22.322][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:22.323][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:22.324][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 19:42:22.325][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 19:42:22.327][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:22.328][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:22.328][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:22.328][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:22.330][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 19:42:22.331][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:22.332][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:22.333][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:22.334][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:22.335][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:22.336][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:22.337][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 19:42:22.337][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 19:42:22.339][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:22.340][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:22.341][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:22.343][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 19:42:22.343][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 19:42:22.350][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:22.353][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:22.355][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 19:42:22.357][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:22.360][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:22.362][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:22.391][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 19:42:22.408][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 19:42:22.421][biodb::testThat]
biodb.INFO [2025-10-23 19:42:22.423][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-23 19:42:22.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:22.426][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:22.430][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-23 19:42:22.433][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:22.435][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:22.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:22.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:22.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:22.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:22.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:22.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:22.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:22.480][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.481][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.484][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.520][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:22.521][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:22.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.524][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.557][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:22.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.563][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:22.564][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:22.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:22.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:22.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.574][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:22.575][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:22.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:22.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:22.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.585][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.587][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.595][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:22.597][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:22.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.601][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:22.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:22.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.605][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:22.606][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:22.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.609][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.610][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:22.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:22.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.614][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:22.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:22.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.618][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:22.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:22.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.625][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:22.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:22.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.629][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:22.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:22.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.634][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:22.636][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:22.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.638][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.639][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:22.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:22.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.643][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:22.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:22.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:22.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:22.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:22.744][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-23 19:42:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:22.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:22.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:22.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:22.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:22.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:22.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:22.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:22.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.806][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 19:42:22.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 19:42:22.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.811][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 19:42:22.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 19:42:22.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.815][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 19:42:22.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 19:42:22.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 19:42:22.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 19:42:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.895][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.969][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.970][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.972][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:22.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:22.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:22.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:22.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:22.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.005][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.007][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.023][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.035][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.042][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.043][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.062][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.066][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.070][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.075][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.080][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.108][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.109][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.138][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.158][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.163][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.166][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.171][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.172][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.174][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.187][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.208][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.209][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.212][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.213][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.229][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.235][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.240][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.248][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.249][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.262][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.271][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.300][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.312][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.343][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.367][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.371][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.378][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.380][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.388][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.389][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.398][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.410][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.412][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.422][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.423][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.426][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.433][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.434][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.447][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.457][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.459][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.467][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.470][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.473][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.480][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.481][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.483][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:23.493][biodb::testThat]
biodb.INFO [2025-10-23 19:42:23.495][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-23 19:42:23.496][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:23.497][biodb::testThat]
biodb.DEBUG[2025-10-23 19:42:23.512][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-23 19:42:23.517][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:23.521][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:23.526][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-23 19:42:23.528][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:23.560][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:23.562][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:23.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:23.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:23.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:23.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:23.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:23.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:23.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:23.581][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.611][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.612][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.614][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.615][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:23.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:23.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.619][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.621][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.624][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:23.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:23.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.629][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.631][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:23.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:23.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:23.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.648][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.649][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.653][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:23.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.658][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:23.659][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.663][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:23.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.670][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.673][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.680][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.681][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.684][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.688][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:23.689][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.691][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.692][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:23.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:23.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.696][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.698][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.701][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:23.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:23.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:23.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:23.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:23.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:23.760][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-23 19:42:23.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-23 19:42:23.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-23 19:42:23.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-23 19:42:23.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-23 19:42:23.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-23 19:42:23.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-23 19:42:23.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:23.785][biodb::testThat]
biodb.INFO [2025-10-23 19:42:23.786][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-23 19:42:23.787][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:23.788][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:23.792][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.793][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.795][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:23.797][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-23 19:42:23.830][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.836][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:23.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:23.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:23.851][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-23 19:42:23.857][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 19:42:23.885][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:23.890][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 19:42:23.891][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:23.915][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 [2025-10-23 19:42:23.953][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:23.957][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:23.959][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:23.961][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-23 19:42:23.979][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.980][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:23.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:23.984][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:23.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:23.988][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:23.994][biodb::testThat]
biodb.INFO [2025-10-23 19:42:23.995][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-23 19:42:23.997][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:23.998][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:24.036][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:24.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:24.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:24.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.045][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:24.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:24.118][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 [2025-10-23 19:42:24.122][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:24.126][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:24.128][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-23 19:42:24.150][biodb::testThat]
biodb.INFO [2025-10-23 19:42:24.151][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-23 19:42:24.153][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:24.154][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:24.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:24.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:24.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.184][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:24.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:24.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.206][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.216][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.221][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.228][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 19:42:24.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 19:42:24.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 19:42:24.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 19:42:24.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.258][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:24.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:24.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:24.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:24.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.271][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:24.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:24.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.283][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.288][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 19:42:24.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.292][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 19:42:24.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 19:42:24.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:24.296][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 19:42:24.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 19:42:24.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:24.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:24.309][biodb::testThat]
biodb.INFO [2025-10-23 19:42:24.310][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-23 19:42:24.312][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:24.313][biodb::testThat]
biodb.INFO [2025-10-23 19:42:24.323][biodb::testThat]
biodb.INFO [2025-10-23 19:42:24.324][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-23 19:42:24.325][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:24.326][biodb::testThat]
biodb.INFO [2025-10-23 19:42:24.336][biodb::testThat]
biodb.INFO [2025-10-23 19:42:24.337][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-23 19:42:24.338][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:24.339][biodb::testThat]
biodb.DEBUG[2025-10-23 19:42:24.343][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-23 19:42:24.793][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-23 19:42:25.388][biodb::testThat]
biodb.INFO [2025-10-23 19:42:25.390][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-23 19:42:25.391][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:25.392][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:25.399][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:25.400][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:25.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.403][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:25.404][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:25.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.406][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:25.408][biodb::testThat]
biodb.INFO [2025-10-23 19:42:25.409][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-23 19:42:25.410][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:25.411][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:25.425][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:25.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:25.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.431][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:25.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:25.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:25.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:25.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:25.567][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 [2025-10-23 19:42:25.571][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:25.575][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:25.577][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:25.683][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 [2025-10-23 19:42:25.687][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:25.690][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:25.692][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-23 19:42:25.710][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 19:42:25.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 19:42:25.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:25.755][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 [2025-10-23 19:42:25.759][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:25.762][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 19:42:25.763][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:25.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:25.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:25.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:25.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:25.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:25.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:25.779][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[2025-10-23 19:42:25.780][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-23 19:42:25.845][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:25.847][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:25.852][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-23 19:42:25.854][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:25.855][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:25.857][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:25.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:25.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:25.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:25.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:25.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:25.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:25.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:25.875][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:25.876][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:25.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:25.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:25.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.884][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:25.886][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:25.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.890][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:25.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:25.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.896][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:25.897][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:25.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.899][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.901][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:25.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:25.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.905][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:25.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:25.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.908][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:25.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:25.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.915][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:25.916][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:25.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:25.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:25.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.924][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:25.926][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:25.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.929][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:25.931][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.935][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:25.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:25.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.940][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:25.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:25.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:25.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:25.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.959][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:25.961][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:25.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.965][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:25.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:25.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.971][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:25.972][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:25.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.975][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.977][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:25.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:25.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.981][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:25.983][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:25.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.985][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.986][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:25.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:25.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:25.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:25.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:25.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:25.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:25.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.034][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-23 19:42:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:26.059][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:26.063][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:26.065][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 19:42:26.067][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:26.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:26.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.124][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.126][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:26.128][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-23 19:42:26.129][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:26.131][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:26.134][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-23 19:42:26.136][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:26.138][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:26.139][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:26.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.150][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:26.157][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.158][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.166][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:26.168][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:26.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.172][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:26.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:26.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.176][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:26.177][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:26.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.181][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:26.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:26.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.187][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:26.188][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:26.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:26.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:26.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.198][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.199][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.203][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.208][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.210][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.212][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.214][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:26.215][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.217][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.219][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:26.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.225][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.233][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.243][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.248][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.250][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.254][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.255][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.258][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.262][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:26.264][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:26.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.267][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:26.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:26.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.277][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.317][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-23 19:42:26.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:26.357][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 [2025-10-23 19:42:26.360][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:26.364][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:26.366][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:26.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.390][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.TRACE[2025-10-23 19:42:26.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:26.417][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-23 19:42:26.418][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:26.420][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:26.424][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-23 19:42:26.425][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:26.426][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:26.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:26.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.441][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.TRACE[2025-10-23 19:42:26.445][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.454][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:26.455][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:26.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.457][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.458][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:26.459][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:26.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.461][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.463][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:26.464][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:26.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.468][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.469][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.470][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.472][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.473][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.475][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.476][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:26.477][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.479][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.481][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.483][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.485][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.486][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.488][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.491][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.494][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.501][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.502][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.504][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.510][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:26.511][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:26.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.567][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-23 19:42:26.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:26.607][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-23 19:42:26.608][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:26.610][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:26.614][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-23 19:42:26.615][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:26.617][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:26.618][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:26.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:26.635][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.636][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.645][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:26.646][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:26.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.648][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.649][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:26.650][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:26.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.653][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:26.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:26.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.666][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.674][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.675][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:26.676][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.680][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.681][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.683][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.684][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.685][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.689][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.694][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.695][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.698][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.700][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.704][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:26.705][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:26.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.708][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.755][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-23 19:42:26.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:26.798][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-23 19:42:26.800][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:26.802][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:26.806][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-23 19:42:26.807][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:26.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:26.810][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:26.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:26.828][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.829][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.831][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.836][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:26.837][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:26.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.841][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:26.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:26.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.846][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:26.846][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:26.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.850][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.851][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:26.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.855][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.857][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:26.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.861][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:26.862][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.864][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.869][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.871][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:26.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.875][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.876][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.879][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:26.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:26.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.885][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.888][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:26.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:26.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.893][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:26.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:26.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:26.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:26.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:26.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.948][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-23 19:42:26.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:26.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:26.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:26.975][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:26.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:26.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:26.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:26.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:26.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:26.989][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-23 19:42:26.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:26.992][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:26.999][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-23 19:42:27.000][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:27.002][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:27.004][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:27.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:27.023][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.033][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.035][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.037][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.038][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.043][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.044][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.047][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.049][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.054][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.056][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.058][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.063][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.074][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.075][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.079][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.107][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.108][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.113][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.119][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.120][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.130][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.132][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.142][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.143][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.145][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.147][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.151][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.152][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.209][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-23 19:42:27.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.220][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:27.239][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-23 19:42:27.240][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:27.241][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:27.248][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-23 19:42:27.249][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:27.251][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:27.258][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:27.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:27.275][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.276][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.284][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.287][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.288][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.292][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.296][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.301][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.302][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.303][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.305][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.309][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.318][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.319][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.323][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.328][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.329][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.334][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.339][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.340][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.348][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.350][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.352][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.357][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.358][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.366][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.367][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.370][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.374][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.426][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-23 19:42:27.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:27.453][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-23 19:42:27.454][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:27.456][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:27.460][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-23 19:42:27.461][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:27.463][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:27.464][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:27.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:27.483][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.484][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.486][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.492][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.493][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.495][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.496][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.501][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.502][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.510][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.511][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.536][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.537][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.542][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.544][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.548][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.555][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.572][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.574][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.582][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.583][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.586][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.587][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.637][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-23 19:42:27.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:27.672][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-23 19:42:27.674][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:27.675][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:27.680][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-23 19:42:27.681][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:27.682][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:27.684][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:27.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:27.697][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.698][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.707][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.708][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.712][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.720][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.724][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.725][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.727][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.733][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.737][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.743][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.747][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.749][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.752][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.757][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.758][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.766][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.767][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.771][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.776][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.778][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.780][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.781][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.786][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:27.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.845][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-23 19:42:27.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:27.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:27.870][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-23 19:42:27.871][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:27.873][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:27.877][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-23 19:42:27.878][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:27.879][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:27.881][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:27.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:27.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:27.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:27.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:27.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:27.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:27.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:27.897][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.899][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.901][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.907][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.913][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:27.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:27.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.917][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.918][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.921][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:27.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:27.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.927][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.928][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:27.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:27.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.942][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.944][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.946][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:27.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.951][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.953][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:27.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.955][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.956][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.960][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:27.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:27.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.964][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.965][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:27.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.975][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.976][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.979][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:27.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:27.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.986][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.990][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.992][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:27.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:27.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:27.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:27.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:27.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:27.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.047][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-23 19:42:28.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.079][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:28.085][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-23 19:42:28.086][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:28.088][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:28.093][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-23 19:42:28.094][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:28.096][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:28.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:28.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:28.114][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.123][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.124][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.127][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.131][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.132][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.136][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.140][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.141][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.143][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.149][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.150][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.152][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.158][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.159][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.162][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.163][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.165][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.167][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.172][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.174][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.176][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.181][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.182][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.184][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.185][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.190][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.191][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.193][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.199][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.262][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-23 19:42:28.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:28.293][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-23 19:42:28.294][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:28.296][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:28.301][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-23 19:42:28.302][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:28.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:28.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:28.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:28.323][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.324][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.326][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.332][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.333][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.337][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.343][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.345][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.348][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.355][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.366][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.372][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.373][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.382][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.383][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.386][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.388][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.390][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.392][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.396][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.397][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.406][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.415][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.416][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.418][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.424][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.425][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.428][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.432][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.476][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-23 19:42:28.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:28.512][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-23 19:42:28.513][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:28.515][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:28.518][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-23 19:42:28.520][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:28.522][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:28.523][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:28.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:28.540][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.541][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.543][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.549][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.550][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.554][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.559][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.560][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.563][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.565][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.569][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.570][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.573][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.574][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.576][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.577][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.582][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.584][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.585][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.588][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.602][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.604][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.606][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.607][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.612][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.618][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.623][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.624][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.627][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.687][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-23 19:42:28.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:28.718][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-23 19:42:28.719][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:28.721][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:28.724][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-23 19:42:28.726][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:28.728][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:28.729][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:28.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:28.746][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.747][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.750][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.757][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.758][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.761][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.765][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.767][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.771][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.776][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.777][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.779][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.781][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.782][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.791][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.792][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.797][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.798][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.801][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:28.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.805][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.806][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.809][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:28.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.814][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.815][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.817][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.819][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:28.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:28.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.824][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.829][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:28.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:28.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.833][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:28.835][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:28.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:28.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.885][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-23 19:42:28.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:28.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:28.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:28.910][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-23 19:42:28.912][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:28.913][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:28.917][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-23 19:42:28.925][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:28.927][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:28.929][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:28.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:28.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:28.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:28.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:28.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:28.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:28.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:28.947][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.948][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.951][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:28.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:28.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.957][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.959][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.961][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.962][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:28.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:28.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.969][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.971][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.972][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:28.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:28.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.979][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:28.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.987][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.988][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:28.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:28.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:28.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:28.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.000][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.002][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.005][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.006][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.010][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.013][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.020][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.022][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.029][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.030][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.033][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.037][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.038][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.100][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-23 19:42:29.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.119][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:29.131][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-23 19:42:29.132][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:29.134][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:29.138][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-23 19:42:29.139][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:29.141][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:29.142][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:29.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:29.160][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.161][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.171][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.172][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.181][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.184][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.185][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.189][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.190][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.193][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.197][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.198][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.206][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.207][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.212][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.213][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.216][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.217][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.218][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.220][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.221][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.225][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.226][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.228][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.234][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.235][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.242][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.243][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.247][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.250][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.252][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.255][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.302][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-23 19:42:29.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.335][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[2025-10-23 19:42:29.337][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-23 19:42:29.338][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:29.340][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:29.345][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-23 19:42:29.346][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:29.348][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:29.349][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:29.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.364][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[2025-10-23 19:42:29.367][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.371][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.377][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.378][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.382][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.387][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.390][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.394][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.395][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.397][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.402][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.403][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.410][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.411][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.413][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.415][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.416][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.418][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.419][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.428][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.435][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.444][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.445][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.448][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.453][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.454][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.457][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.458][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.472][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.520][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-23 19:42:29.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:29.548][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-23 19:42:29.550][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:29.552][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:29.556][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-23 19:42:29.558][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:29.560][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:29.561][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:29.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:29.580][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.581][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.591][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.592][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.596][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.601][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.602][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.605][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.610][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.618][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.622][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.630][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.631][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.635][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.640][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.641][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.643][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.645][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.647][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.650][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.656][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.659][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.666][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.668][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.671][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.679][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.680][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.688][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.690][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.692][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.694][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.746][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-23 19:42:29.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.785][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[2025-10-23 19:42:29.787][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-23 19:42:29.788][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:29.790][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:29.795][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-23 19:42:29.796][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:29.798][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:29.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:29.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:29.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:29.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:29.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:29.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:29.816][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.817][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.819][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.827][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.828][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.831][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.832][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:29.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:29.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.838][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.839][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.841][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.843][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:29.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:29.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.850][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.852][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.853][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:29.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:29.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.858][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:29.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.866][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.867][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:29.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.870][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.872][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.875][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:29.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.880][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.881][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:29.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.889][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.890][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.892][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.893][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:29.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.898][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.900][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.902][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.911][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:29.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:29.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.918][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.919][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.923][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:29.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:29.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:29.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.978][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-23 19:42:29.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:29.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:29.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:29.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:29.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:29.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:29.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:30.004][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-23 19:42:30.005][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:30.007][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:30.010][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-23 19:42:30.012][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:30.013][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:30.014][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:30.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.031][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.032][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.034][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.040][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:30.041][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:30.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.044][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.046][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:30.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:30.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.065][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:30.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:30.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:30.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:30.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:30.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:30.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.081][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.083][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:30.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:30.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.088][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.089][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.098][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:30.099][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:30.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.103][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:30.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.107][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.109][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:30.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.114][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.115][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.117][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.123][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:30.124][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:30.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.128][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:30.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:30.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.132][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:30.133][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:30.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.135][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:30.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:30.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.141][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:30.142][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:30.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.144][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:30.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:30.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.205][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-23 19:42:30.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:30.239][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-23 19:42:30.241][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:30.243][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:30.246][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-23 19:42:30.247][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:30.249][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:30.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:30.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.269][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.271][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.280][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:30.281][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:30.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:30.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:30.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.289][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:30.290][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:30.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:30.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:30.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.299][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:30.300][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:30.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.304][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:30.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:30.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.311][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:30.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.321][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:30.323][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:30.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.325][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.327][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:30.328][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.332][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:30.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.337][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.338][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:30.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.347][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:30.348][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:30.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.361][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:30.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:30.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.369][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:30.370][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:30.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.375][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:30.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:30.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.381][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:30.382][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:30.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:30.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:30.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:30.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:30.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:30.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.439][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-23 19:42:30.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:30.477][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:30.480][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:30.483][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:30.485][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:30.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.529][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.531][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.634][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.659][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.780][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.856][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:30.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:30.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:30.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:30.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:30.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:30.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:30.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:30.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:30.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:30.998][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:30.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.075][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:31.184][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:31.188][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:31.191][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-23 19:42:31.192][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:31.196][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:31.198][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:31.201][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-23 19:42:31.203][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:31.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:31.217][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-23 19:42:31.218][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:31.221][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:31.225][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-23 19:42:31.227][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:31.228][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:31.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:31.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.254][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.255][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.262][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:31.264][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:31.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.267][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:31.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:31.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.271][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:31.272][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:31.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.274][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.275][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:31.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:31.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.281][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:31.282][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:31.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:31.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:31.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.290][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.291][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.295][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.300][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:31.302][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:31.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.303][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:31.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:31.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.309][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:31.310][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:31.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.320][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.328][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:31.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:31.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:31.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:31.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:31.342][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:31.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.346][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:31.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:31.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.350][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:31.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:31.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:31.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:31.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.413][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.419][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-23 19:42:31.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.442][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.446][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.TRACE[2025-10-23 19:42:31.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:31.474][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-23 19:42:31.475][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:31.476][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:31.480][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-23 19:42:31.482][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:31.483][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:31.485][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:31.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.500][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.502][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.504][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.509][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:31.511][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:31.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.520][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.522][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:31.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:31.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.529][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:31.530][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:31.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.531][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.533][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:31.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:31.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.536][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:31.537][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:31.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:31.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:31.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.544][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.545][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.548][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:31.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.552][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:31.553][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:31.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.558][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:31.559][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.562][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.563][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:31.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:31.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.568][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.569][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.572][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.576][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:31.577][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:31.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.579][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.580][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:31.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:31.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.585][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:31.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:31.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.588][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:31.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:31.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.594][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:31.595][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:31.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.599][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:31.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:31.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:31.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:31.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:31.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.651][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-23 19:42:31.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:31.693][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:31.696][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:31.699][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:31.701][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:31.704][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.742][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.957][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:31.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:31.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:31.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:31.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:31.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:31.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:31.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:31.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:31.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:31.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:31.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.115][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.162][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:32.338][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:32.340][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:32.343][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 19:42:32.344][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:32.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.568][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.653][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.672][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.839][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.883][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:32.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:32.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.936][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:32.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:32.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:32.952][biodb::testThat]
biodb.INFO [2025-10-23 19:42:32.953][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-23 19:42:32.955][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:32.956][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:32.960][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 19:42:32.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 19:42:32.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:32.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:32.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:32.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:32.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:32.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:32.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:32.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:32.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:32.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:32.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:33.002][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:33.005][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:33.007][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 19:42:33.008][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:33.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:33.218][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:33.222][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:33.225][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 19:42:33.226][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:33.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.239][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.242][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:33.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.256][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:33.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:33.277][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 19:42:33.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.301][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.302][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:33.303][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:33.304][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:33.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.306][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.309][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.310][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.311][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.314][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.315][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.316][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.319][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:33.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.340][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 19:42:33.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.365][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:33.366][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:33.367][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:33.368][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.370][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.381][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.381][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.383][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.386][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:33.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.402][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 19:42:33.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.423][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.429][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.431][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:33.432][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:33.433][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:33.434][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.436][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.437][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.441][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.442][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.445][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.446][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.448][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.453][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:33.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 19:42:33.471][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 19:42:33.472][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 19:42:33.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:33.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:33.599][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:33.603][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:33.606][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 19:42:33.607][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:33.610][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:33.613][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:33.615][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 19:42:33.616][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:33.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:33.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:33.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:33.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:33.726][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 19:42:33.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.763][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.777][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:33.777][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:33.779][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:33.779][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.780][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.781][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.784][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.786][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.790][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.790][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.796][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:33.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.809][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 19:42:33.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.867][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:33.868][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:33.870][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:33.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.872][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.881][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.893][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.899][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:33.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.914][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 19:42:33.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:33.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:33.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:33.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:33.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:33.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:33.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:33.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.939][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:33.945][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:33.946][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:33.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.954][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.955][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.958][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:33.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.964][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:33.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:33.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:33.978][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 19:42:33.979][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 19:42:33.980][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 19:42:33.989][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:33.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:33.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:33.998][biodb::testThat]
biodb.INFO [2025-10-23 19:42:33.999][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-23 19:42:34.000][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:34.001][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:34.004][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 19:42:34.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 19:42:34.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:34.048][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:34.052][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:34.054][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 19:42:34.055][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:34.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:34.085][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:34.087][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:34.089][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 19:42:34.090][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:34.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.126][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.141][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 19:42:34.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.153][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.163][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.164][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.165][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.165][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.167][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.169][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.172][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.173][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.177][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.178][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.179][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.182][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.196][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 19:42:34.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.209][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.221][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.222][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.223][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.225][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.226][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.227][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.228][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.231][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.232][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.235][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.236][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.237][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.238][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.241][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.255][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 19:42:34.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.264][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.279][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.280][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.282][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.283][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.284][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.285][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.286][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.289][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.290][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.293][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.294][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.295][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.298][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.299][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.312][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 19:42:34.320][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 19:42:34.321][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 19:42:34.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.355][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:34.360][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:34.362][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:34.364][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 19:42:34.364][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:34.367][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:34.369][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:34.371][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 19:42:34.372][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:34.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.375][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:34.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.454][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 19:42:34.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.476][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.477][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.477][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.479][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.484][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.491][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.492][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.499][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.513][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 19:42:34.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.515][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.530][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.536][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.537][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.538][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.541][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.543][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.544][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.546][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.549][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.550][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.555][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.567][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 19:42:34.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.592][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.592][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.593][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.595][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.598][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.599][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.600][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.602][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.603][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.604][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.605][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.607][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.608][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.620][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 19:42:34.621][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 19:42:34.622][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 19:42:34.633][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:34.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:34.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:34.642][biodb::testThat]
biodb.INFO [2025-10-23 19:42:34.644][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-23 19:42:34.645][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:34.645][biodb::testThat]
biodb.TRACE[2025-10-23 19:42:34.649][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 19:42:34.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 19:42:34.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:34.698][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:34.700][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:34.703][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 19:42:34.704][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:34.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 19:42:34.731][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:34.735][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:34.737][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 19:42:34.739][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:34.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.743][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.784][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.789][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.794][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:34.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:34.801][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 19:42:34.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.821][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.826][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.827][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.828][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.829][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.833][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.839][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.840][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.841][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.845][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.859][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 19:42:34.860][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.861][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.882][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.883][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.884][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.885][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.888][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.890][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.896][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.898][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.899][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.901][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.905][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.911][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.921][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 19:42:34.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:34.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:34.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:34.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:34.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:34.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:34.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.943][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.943][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:34.944][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:34.945][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:34.946][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.948][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.954][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.955][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:34.956][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.957][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.959][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:34.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:34.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:34.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:34.971][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 19:42:34.972][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 19:42:34.973][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 19:42:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:35.039][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:35.042][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:35.044][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 19:42:35.046][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:35.050][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:35.053][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:35.056][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 19:42:35.057][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:35.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.145][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 19:42:35.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.170][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.171][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:35.172][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:35.173][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:35.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.176][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.177][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.180][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.184][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.185][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.186][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.188][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.191][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.203][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 19:42:35.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.232][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.233][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:35.234][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:35.236][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:35.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.241][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.247][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.248][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.250][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.251][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.255][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:35.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.272][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 19:42:35.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.297][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 19:42:35.299][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 19:42:35.300][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 19:42:35.301][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.302][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.304][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.306][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.313][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.314][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 19:42:35.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.317][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.321][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 19:42:35.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.336][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 19:42:35.337][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 19:42:35.338][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 19:42:35.364][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 19:42:35.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:35.374][biodb::testThat]
biodb.INFO [2025-10-23 19:42:35.376][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-23 19:42:35.377][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:35.377][biodb::testThat]
biodb.DEBUG[2025-10-23 19:42:35.380][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-23 19:42:35.382][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:35.384][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:35.388][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-23 19:42:35.389][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:35.391][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:35.393][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:35.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.413][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.415][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.418][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.425][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:35.427][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:35.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.428][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.429][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:35.430][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:35.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.432][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.434][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:35.434][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:35.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.437][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.438][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.439][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.441][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.443][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.444][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.448][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:35.449][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:35.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.451][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.453][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:35.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:35.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.462][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:35.463][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:35.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.467][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:35.468][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:35.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.470][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.546][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-23 19:42:35.547][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-23 19:42:35.560][biodb::testThat]
biodb.INFO [2025-10-23 19:42:35.561][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-23 19:42:35.562][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:35.563][biodb::testThat]
biodb.DEBUG[2025-10-23 19:42:35.572][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-23 19:42:35.573][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-23 19:42:35.575][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-23 19:42:35.577][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:35.580][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-23 19:42:35.583][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-23 19:42:35.587][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-23 19:42:35.588][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:35.590][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-23 19:42:35.591][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:35.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.605][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.606][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.613][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:35.614][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:35.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:35.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:35.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.621][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:35.622][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:35.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.624][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.625][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.627][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.629][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.630][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.632][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.634][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:35.635][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:35.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.637][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.638][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.639][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.642][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:35.643][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:35.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.646][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.648][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:35.649][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:35.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.650][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.651][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:35.653][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:35.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.654][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.656][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.699][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.700][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.710][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:35.711][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:35.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.713][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.714][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:35.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:35.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.718][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:35.719][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:35.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.721][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.723][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:35.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:35.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:35.728][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:35.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:35.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:35.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.735][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.736][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.738][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.739][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.743][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.744][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.748][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.751][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:35.752][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:35.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.755][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:35.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:35.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.759][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.760][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.762][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.769][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:35.770][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:35.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:35.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:35.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.781][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:35.782][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:35.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.785][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.786][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:35.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:35.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:35.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:35.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.796][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.798][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:35.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:35.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:35.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:35.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:35.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:35.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:35.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:35.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:35.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:35.857][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.868][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:35.869][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:35.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.873][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:35.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:35.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.878][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:35.880][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:35.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.884][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:35.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:35.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.889][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:35.890][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:35.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:35.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:35.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.896][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.897][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:35.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.905][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.907][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.909][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.910][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:35.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.915][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:35.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:35.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.920][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:35.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:35.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.924][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.926][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:35.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.933][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:35.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:35.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.937][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:35.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:35.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.943][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:35.944][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:35.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.946][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.947][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:35.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:35.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.951][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:35.952][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:35.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.956][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:35.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:35.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:35.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:35.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:35.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:36.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:36.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:36.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:36.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:36.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:36.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:36.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:36.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:36.024][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-23 19:42:36.025][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-23 19:42:36.026][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-23 19:42:36.042][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.044][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-23 19:42:36.044][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:36.045][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.074][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.076][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-23 19:42:36.077][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:36.078][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.089][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.090][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-23 19:42:36.091][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:36.092][biodb::testThat]
sched.DEBUG[2025-10-23 19:42:36.095][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:36.098][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.103][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-23 19:42:36.105][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-23 19:42:36.119][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:36.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:36.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:36.124][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:36.125][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:36.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:36.127][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 19:42:36.128][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.129][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-23 19:42:36.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:36.131][biodb::testThat]
biodb.ERROR[2025-10-23 19:42:36.146][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-23 19:42:36.162][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-23 19:42:36.175][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 19:42:36.177][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 19:42:36.178][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 19:42:36.180][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.182][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.184][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 19:42:36.195][biodb::testContext]
biodb.INFO [2025-10-23 19:42:36.197][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:36.198][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-23 19:42:36.198][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:36.199][biodb::testContext]
biodb.INFO [2025-10-23 19:42:36.202][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:36.203][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:36.209][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:36.210][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 19:42:36.211][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 19:42:36.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.215][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 19:42:36.241][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 19:42:36.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.245][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 19:42:36.247][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 19:42:36.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.250][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 19:42:36.251][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 19:42:36.252][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 19:42:36.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.257][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 19:42:36.258][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 19:42:36.259][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 19:42:36.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.263][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 19:42:36.264][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 19:42:36.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.267][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 19:42:36.268][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 19:42:36.269][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 19:42:36.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.272][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 19:42:36.273][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 19:42:36.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.276][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 19:42:36.277][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 19:42:36.278][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 19:42:36.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.281][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:36.282][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 19:42:36.282][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 19:42:36.283][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 19:42:36.284][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 19:42:36.285][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 19:42:36.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.288][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 19:42:36.289][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 19:42:36.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.293][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 19:42:36.293][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 19:42:36.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.297][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 19:42:36.297][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 19:42:36.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.300][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[2025-10-23 19:42:36.301][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 19:42:36.301][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 19:42:36.302][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 19:42:36.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.306][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:36.307][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 19:42:36.331][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 19:42:36.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.335][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[2025-10-23 19:42:36.336][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 19:42:36.338][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 19:42:36.339][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 19:42:36.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.344][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 19:42:36.346][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.347][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 19:42:36.349][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.350][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:36.351][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.352][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.353][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.353][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.354][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:36.355][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:36.356][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.357][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 19:42:36.358][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:36.358][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.359][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.360][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:36.360][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:36.360][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:36.360][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:36.360][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:36.361][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:36.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:36.364][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.365][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.366][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.367][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.368][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:36.368][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:36.369][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.370][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.371][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 19:42:36.373][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.374][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:36.375][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.376][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:36.377][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.378][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.380][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.381][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.382][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:36.384][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:36.385][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.386][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 19:42:36.387][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:36.388][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.388][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.389][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:36.389][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:36.389][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:36.389][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:36.389][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:36.390][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:36.391][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.392][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.394][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:36.395][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.396][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.397][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.398][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.398][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:36.399][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:36.400][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.401][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.402][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 19:42:36.404][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.404][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 19:42:36.405][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.406][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:36.407][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.408][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.409][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.410][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.410][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:36.411][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:36.412][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.413][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 19:42:36.414][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:36.415][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.416][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.417][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.417][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:36.418][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.419][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.420][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:36.421][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.422][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.423][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.424][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:36.425][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:36.426][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.427][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.428][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 19:42:36.429][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.430][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:36.431][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.432][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:36.433][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.434][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.435][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.436][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.436][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:36.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:36.438][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.439][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 19:42:36.440][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:36.441][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.442][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.444][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.445][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:36.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.448][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.449][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:36.450][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.452][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.454][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:36.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:36.457][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.458][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:36.459][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:36.460][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.482][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[2025-10-23 19:42:36.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.527][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".
biodb.DEBUG[2025-10-23 19:42:36.528][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 19:42:36.529][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 19:42:36.530][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 19:42:36.532][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 19:42:36.533][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:36.534][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 19:42:36.535][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:36.537][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:36.538][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 19:42:36.539][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 19:42:36.540][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:36.548][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 19:42:36.550][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:36.552][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:36.554][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 19:42:36.556][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 19:42:36.558][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 19:42:36.560][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 19:42:36.561][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:36.563][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 19:42:36.565][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 19:42:36.567][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 19:42:36.569][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 19:42:36.570][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 19:42:36.571][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 19:42:36.573][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 19:42:36.574][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 19:42:36.575][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 19:42:36.577][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 19:42:36.578][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 19:42:36.579][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 19:42:36.581][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 19:42:36.582][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 19:42:36.584][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 19:42:36.585][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 19:42:36.586][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 19:42:36.588][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 19:42:36.589][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 19:42:36.591][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 19:42:36.592][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 19:42:36.594][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 19:42:36.595][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 19:42:36.597][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 19:42:36.598][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 19:42:36.600][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 19:42:36.601][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 19:42:36.603][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 19:42:36.605][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 19:42:36.606][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 19:42:36.608][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 19:42:36.609][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 19:42:36.610][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 19:42:36.611][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 19:42:36.613][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 19:42:36.614][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 19:42:36.615][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 19:42:36.617][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 19:42:36.618][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 19:42:36.620][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 19:42:36.622][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 19:42:36.624][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 19:42:36.625][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 19:42:36.627][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 19:42:36.628][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 19:42:36.629][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 19:42:36.631][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 19:42:36.632][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:36.634][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:36.635][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 19:42:36.637][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 19:42:36.638][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 19:42:36.639][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 19:42:36.641][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 19:42:36.642][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 19:42:36.644][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 19:42:36.645][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 19:42:36.647][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 19:42:36.648][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 19:42:36.650][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 19:42:36.652][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 19:42:36.653][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 19:42:36.654][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 19:42:36.656][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 19:42:36.657][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 19:42:36.659][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:36.660][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:36.661][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.663][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.664][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[2025-10-23 19:42:36.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.694][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.DEBUG[2025-10-23 19:42:36.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.708][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[2025-10-23 19:42:36.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.714][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[2025-10-23 19:42:36.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.719][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[2025-10-23 19:42:36.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.730][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[2025-10-23 19:42:36.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.743][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.DEBUG[2025-10-23 19:42:36.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:36.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.764][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:36.765][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 19:42:36.767][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.768][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.770][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.771][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:36.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.774][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.775][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 19:42:36.776][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 19:42:36.777][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:36.778][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.778][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 19:42:36.780][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 19:42:36.781][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 19:42:36.782][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:36.783][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:36.783][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:36.783][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:36.784][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 19:42:36.785][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.785][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:36.787][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:36.788][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:36.789][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:36.790][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 19:42:36.790][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 19:42:36.791][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:36.792][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:36.792][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:36.793][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 19:42:36.793][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 19:42:36.795][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:36.796][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:36.798][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 19:42:36.799][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:36.800][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:36.802][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:36.805][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 19:42:36.812][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 19:42:36.814][biodb::testThat]
biodb.INFO [2025-10-23 19:42:36.815][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-23 19:42:36.816][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:36.817][biodb::testThat]
sched.DEBUG[2025-10-23 19:42:36.820][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 19:42:36.822][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.828][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 19:42:36.829][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:36.833][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 [2025-10-23 19:42:36.836][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.838][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 19:42:36.839][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:36.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.855][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".
sched.DEBUG[2025-10-23 19:42:36.856][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 [2025-10-23 19:42:36.859][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.862][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 19:42:36.863][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:36.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:36.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.914][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".
sched.DEBUG[2025-10-23 19:42:36.920][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 [2025-10-23 19:42:36.922][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.924][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 19:42:36.926][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:36.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.935][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.937][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.938][FUN] Functions in observer 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[2025-10-23 19:42:36.940][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 [2025-10-23 19:42:36.942][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.944][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 19:42:36.946][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:36.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.960][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[2025-10-23 19:42:36.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.973][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".
sched.DEBUG[2025-10-23 19:42:36.978][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 [2025-10-23 19:42:36.981][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:36.982][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 19:42:36.983][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:36.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:36.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:36.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:36.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:36.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:36.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:36.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 19:42:36.998][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 [2025-10-23 19:42:37.001][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:37.002][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 19:42:37.003][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:37.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:37.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.015][FUN] Functions in observer 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[2025-10-23 19:42:37.016][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 [2025-10-23 19:42:37.019][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:37.022][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-23 19:42:37.023][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:37.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:37.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.036][FUN] Functions in observer BiodbConfig: [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 [2025-10-23 19:42:37.046][biodb::testThat]
biodb.INFO [2025-10-23 19:42:37.047][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-23 19:42:37.048][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:37.050][biodb::testThat]
sched.DEBUG[2025-10-23 19:42:37.053][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 [2025-10-23 19:42:37.057][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:37.059][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-23 19:42:37.060][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:37.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:37.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.074][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".
sched.DEBUG[2025-10-23 19:42:37.079][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 [2025-10-23 19:42:37.081][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:37.084][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-23 19:42:37.085][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:37.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:37.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.099][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.INFO [2025-10-23 19:42:37.107][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 19:42:37.108][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 19:42:37.109][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 19:42:37.111][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.113][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.114][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.115][FUN] Functions in observer BiodbConfig: [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 [2025-10-23 19:42:37.121][biodb::testContext]
biodb.INFO [2025-10-23 19:42:37.122][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:37.124][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-23 19:42:37.125][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:37.126][biodb::testContext]
biodb.INFO [2025-10-23 19:42:37.129][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:37.131][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:37.137][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:37.138][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 19:42:37.139][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.144][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 19:42:37.145][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.148][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[2025-10-23 19:42:37.149][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 19:42:37.150][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.154][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 19:42:37.155][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 19:42:37.156][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 19:42:37.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.160][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 19:42:37.161][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 19:42:37.162][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.166][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 19:42:37.167][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 19:42:37.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.171][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 19:42:37.172][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 19:42:37.173][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 19:42:37.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.176][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 19:42:37.177][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.180][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 19:42:37.181][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 19:42:37.182][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.186][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:37.186][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 19:42:37.187][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 19:42:37.188][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 19:42:37.189][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 19:42:37.190][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 19:42:37.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.194][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 19:42:37.195][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 19:42:37.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.199][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 19:42:37.200][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 19:42:37.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.204][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 19:42:37.205][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 19:42:37.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.209][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 19:42:37.210][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 19:42:37.211][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 19:42:37.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.215][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:37.216][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 19:42:37.240][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 19:42:37.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.245][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 19:42:37.247][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 19:42:37.248][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 19:42:37.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.253][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 19:42:37.254][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.255][self$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[2025-10-23 19:42:37.256][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.257][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:37.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.260][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.260][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.261][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.262][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:37.264][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:37.265][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.267][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 19:42:37.268][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:37.269][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.269][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.271][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:37.271][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:37.271][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:37.271][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:37.271][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:37.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:37.274][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.276][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:37.277][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.278][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.280][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.281][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.282][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:37.283][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:37.284][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.285][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.286][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 19:42:37.289][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.290][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:37.291][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.292][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:37.294][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.295][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.305][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.306][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.307][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:37.308][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:37.310][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.311][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 19:42:37.312][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:37.314][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.315][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.316][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:37.316][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:37.316][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:37.316][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:37.316][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:37.318][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:37.319][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.321][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:37.322][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.323][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.324][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.325][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.326][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:37.328][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:37.329][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.330][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.331][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 19:42:37.333][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.334][self$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[2025-10-23 19:42:37.335][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.336][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:37.337][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.338][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.339][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.340][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.341][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:37.343][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:37.344][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.345][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 19:42:37.347][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:37.348][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.349][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.351][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.352][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:37.353][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.356][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:37.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.361][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.362][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:37.363][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:37.364][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.365][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.366][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 19:42:37.368][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.369][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:37.371][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.372][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:37.373][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.375][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.376][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.377][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.378][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:37.379][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:37.381][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.382][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 19:42:37.383][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:37.384][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.384][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.385][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.386][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:37.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.389][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:37.390][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.391][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.391][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.393][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.394][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:37.395][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:37.396][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.398][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:37.399][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:37.400][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.407][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.DEBUG[2025-10-23 19:42:37.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.421][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.DEBUG[2025-10-23 19:42:37.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.438][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[2025-10-23 19:42:37.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.444][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[2025-10-23 19:42:37.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.449][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[2025-10-23 19:42:37.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.480][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".
biodb.DEBUG[2025-10-23 19:42:37.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.486][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 19:42:37.488][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 19:42:37.489][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 19:42:37.491][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 19:42:37.492][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:37.494][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 19:42:37.495][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:37.496][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:37.498][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 19:42:37.499][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 19:42:37.501][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:37.503][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 19:42:37.505][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:37.507][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:37.509][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 19:42:37.511][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 19:42:37.513][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 19:42:37.514][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 19:42:37.515][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:37.517][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 19:42:37.518][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 19:42:37.520][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 19:42:37.521][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 19:42:37.523][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 19:42:37.525][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 19:42:37.527][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 19:42:37.529][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 19:42:37.531][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 19:42:37.533][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 19:42:37.535][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 19:42:37.537][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 19:42:37.539][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 19:42:37.540][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 19:42:37.542][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 19:42:37.544][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 19:42:37.546][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 19:42:37.548][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 19:42:37.549][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 19:42:37.550][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 19:42:37.552][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 19:42:37.553][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 19:42:37.554][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 19:42:37.556][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 19:42:37.557][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 19:42:37.558][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 19:42:37.559][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 19:42:37.560][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 19:42:37.562][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 19:42:37.563][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 19:42:37.564][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 19:42:37.565][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 19:42:37.567][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 19:42:37.568][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 19:42:37.570][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 19:42:37.572][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 19:42:37.574][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 19:42:37.576][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 19:42:37.578][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 19:42:37.579][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 19:42:37.581][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 19:42:37.583][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 19:42:37.585][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 19:42:37.586][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 19:42:37.587][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 19:42:37.589][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 19:42:37.591][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 19:42:37.593][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:37.595][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:37.597][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 19:42:37.598][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 19:42:37.600][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 19:42:37.602][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 19:42:37.604][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 19:42:37.606][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 19:42:37.608][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 19:42:37.609][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 19:42:37.611][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 19:42:37.612][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 19:42:37.614][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 19:42:37.616][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 19:42:37.618][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 19:42:37.619][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 19:42:37.621][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 19:42:37.623][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 19:42:37.625][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:37.626][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:37.627][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.630][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.652][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[2025-10-23 19:42:37.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.658][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[2025-10-23 19:42:37.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.692][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.DEBUG[2025-10-23 19:42:37.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.706][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[2025-10-23 19:42:37.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.714][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[2025-10-23 19:42:37.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.728][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[2025-10-23 19:42:37.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.753][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:37.755][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 19:42:37.757][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.758][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.759][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.760][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:37.761][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.762][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.763][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.764][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 19:42:37.764][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 19:42:37.765][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:37.766][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.767][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 19:42:37.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 19:42:37.770][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.771][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:37.771][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:37.771][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:37.772][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 19:42:37.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.774][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.775][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:37.776][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:37.777][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:37.779][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:37.780][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 19:42:37.780][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 19:42:37.780][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:37.781][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:37.783][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:37.784][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 19:42:37.784][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 19:42:37.786][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:37.787][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:37.789][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 19:42:37.791][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:37.792][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:37.794][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:37.798][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 19:42:37.803][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 19:42:37.804][biodb::testThat]
biodb.INFO [2025-10-23 19:42:37.805][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-23 19:42:37.807][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:37.808][biodb::testThat]
sched.DEBUG[2025-10-23 19:42:37.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 19:42:37.814][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:37.818][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 19:42:37.819][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:37.824][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 19:42:37.828][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:37.831][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-23 19:42:37.833][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-23 19:42:37.843][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 19:42:37.844][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 19:42:37.845][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 19:42:37.846][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:37.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:37.848][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:37.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:37.850][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 19:42:37.855][biodb::testContext]
biodb.INFO [2025-10-23 19:42:37.856][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:37.858][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-23 19:42:37.859][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 19:42:37.860][biodb::testContext]
biodb.INFO [2025-10-23 19:42:37.863][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:37.864][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:37.869][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:37.870][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 19:42:37.871][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.875][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 19:42:37.876][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.880][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 19:42:37.882][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.886][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 19:42:37.888][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 19:42:37.889][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 19:42:37.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.893][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 19:42:37.894][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 19:42:37.895][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.900][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 19:42:37.901][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 19:42:37.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.904][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 19:42:37.905][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 19:42:37.906][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 19:42:37.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.910][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 19:42:37.911][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.913][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.916][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 19:42:37.917][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 19:42:37.918][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 19:42:37.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.922][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:37.923][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 19:42:37.924][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 19:42:37.926][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 19:42:37.927][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 19:42:37.928][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 19:42:37.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.933][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 19:42:37.935][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 19:42:37.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.939][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 19:42:37.940][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 19:42:37.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.943][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 19:42:37.944][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 19:42:37.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.949][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 19:42:37.950][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 19:42:37.952][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 19:42:37.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.955][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 19:42:37.956][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 19:42:37.982][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 19:42:37.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.989][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 19:42:37.990][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 19:42:37.992][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 19:42:37.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:37.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:37.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:37.995][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 19:42:37.998][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:37.999][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 19:42:38.001][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.002][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:38.003][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.005][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.006][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.007][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.008][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:38.009][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:38.011][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.012][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 19:42:38.013][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:38.015][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.016][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.017][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:38.017][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:38.017][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:38.017][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:38.017][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:38.019][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:38.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.021][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:38.022][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.023][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.024][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.026][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.027][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:38.028][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:38.029][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.031][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.032][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 19:42:38.035][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.036][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:38.038][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.039][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:38.040][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.042][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.043][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.044][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.045][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:38.046][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:38.047][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.049][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 19:42:38.050][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:38.051][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.053][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.054][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:38.054][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:38.054][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:38.054][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 19:42:38.054][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 19:42:38.055][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:38.056][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.057][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.058][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:38.060][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.061][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.062][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.063][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.073][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:38.075][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:38.076][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.078][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.080][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 19:42:38.082][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.083][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 19:42:38.085][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.086][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:38.088][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.089][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.091][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.092][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.093][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 19:42:38.095][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:38.096][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.097][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 19:42:38.098][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:38.100][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.101][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.102][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.103][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:38.104][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.107][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:38.108][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.109][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.110][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.110][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:38.113][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:38.114][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.115][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.117][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 19:42:38.119][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.120][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 19:42:38.122][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.123][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:38.124][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.125][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.127][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.128][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.129][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 19:42:38.130][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:38.132][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.133][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 19:42:38.134][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:38.135][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.136][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.138][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.139][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 19:42:38.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.142][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:38.143][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.145][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.146][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.147][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.148][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:38.149][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:38.151][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.151][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 19:42:38.153][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:38.154][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.160][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.DEBUG[2025-10-23 19:42:38.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.165][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.190][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.DEBUG[2025-10-23 19:42:38.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.202][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.241][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 19:42:38.243][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 19:42:38.244][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 19:42:38.245][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 19:42:38.246][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:38.248][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 19:42:38.249][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:38.250][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:38.251][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 19:42:38.253][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 19:42:38.255][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:38.257][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 19:42:38.259][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 19:42:38.260][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 19:42:38.261][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 19:42:38.263][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 19:42:38.265][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 19:42:38.267][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 19:42:38.268][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:38.269][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 19:42:38.271][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 19:42:38.273][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 19:42:38.275][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 19:42:38.277][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 19:42:38.278][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 19:42:38.280][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 19:42:38.282][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 19:42:38.284][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 19:42:38.286][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 19:42:38.287][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 19:42:38.288][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 19:42:38.290][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 19:42:38.292][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 19:42:38.294][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 19:42:38.296][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 19:42:38.298][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 19:42:38.300][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 19:42:38.301][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 19:42:38.303][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 19:42:38.304][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 19:42:38.306][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 19:42:38.308][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 19:42:38.309][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 19:42:38.311][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 19:42:38.312][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 19:42:38.314][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 19:42:38.315][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 19:42:38.317][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 19:42:38.318][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 19:42:38.319][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 19:42:38.321][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 19:42:38.322][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 19:42:38.324][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 19:42:38.326][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 19:42:38.328][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 19:42:38.330][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 19:42:38.331][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 19:42:38.333][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 19:42:38.335][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 19:42:38.337][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 19:42:38.339][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 19:42:38.340][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 19:42:38.342][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 19:42:38.343][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 19:42:38.344][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 19:42:38.345][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 19:42:38.347][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:38.348][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:38.350][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 19:42:38.352][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 19:42:38.354][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 19:42:38.356][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 19:42:38.358][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 19:42:38.359][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 19:42:38.360][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 19:42:38.362][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 19:42:38.363][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 19:42:38.364][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 19:42:38.366][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 19:42:38.368][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 19:42:38.369][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 19:42:38.371][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 19:42:38.373][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 19:42:38.375][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 19:42:38.377][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 19:42:38.378][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 19:42:38.378][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.381][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.382][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[2025-10-23 19:42:38.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.440][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[2025-10-23 19:42:38.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.446][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[2025-10-23 19:42:38.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.452][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[2025-10-23 19:42:38.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.459][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[2025-10-23 19:42:38.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 19:42:38.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 19:42:38.504][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 19:42:38.506][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 19:42:38.509][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.510][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.511][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.513][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 19:42:38.514][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.515][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.517][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.518][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 19:42:38.519][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 19:42:38.520][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 19:42:38.521][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.522][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 19:42:38.523][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 19:42:38.524][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 19:42:38.525][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 19:42:38.526][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 19:42:38.526][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 19:42:38.526][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 19:42:38.528][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 19:42:38.529][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.530][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.531][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 19:42:38.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 19:42:38.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 19:42:38.533][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 19:42:38.535][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 19:42:38.535][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 19:42:38.536][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 19:42:38.537][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 19:42:38.538][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 19:42:38.539][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 19:42:38.539][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 19:42:38.541][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 19:42:38.543][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 19:42:38.546][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 19:42:38.547][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 19:42:38.549][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 19:42:38.550][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 19:42:38.554][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 19:42:38.559][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 19:42:38.561][biodb::testThat]
biodb.INFO [2025-10-23 19:42:38.562][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-23 19:42:38.564][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 19:42:38.565][biodb::testThat]
sched.DEBUG[2025-10-23 19:42:38.568][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 19:42:38.572][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:38.577][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 19:42:38.579][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 19:42:38.584][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 [2025-10-23 19:42:38.588][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-23 19:42:38.590][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-23 19:42:38.591][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 19:42:38.596][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-23 19:42:38.601][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 19:42:38.602][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 19:42:38.610][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-23 19:42:38.612][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 19:42:38.614][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 19:42:38.616][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 19:42:38.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 19:42:38.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 19:42:38.637][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.639][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.651][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:38.652][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:38.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.655][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 19:42:38.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 19:42:38.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.662][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:38.663][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:38.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.666][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.667][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 19:42:38.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 19:42:38.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.672][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 19:42:38.673][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 19:42:38.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.675][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.677][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 19:42:38.678][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 19:42:38.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.683][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:38.684][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:38.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.687][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.689][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:38.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 19:42:38.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.694][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:38.695][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:38.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.701][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 19:42:38.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 19:42:38.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.706][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:38.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:38.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:38.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 19:42:38.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.717][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:38.718][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:38.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.722][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 19:42:38.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 19:42:38.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.727][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:38.728][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:38.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.733][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 19:42:38.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 19:42:38.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.739][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:38.740][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:38.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 19:42:38.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 19:42:38.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:38.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:38.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:38.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:38.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 19:42:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 19:42:38.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 19:42:38.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 19:42:38.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 19:42:38.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 19:42:38.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 19:42:38.795][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-23 19:42:38.800][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 19:42:38.801][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 19:42:38.803][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 19:42:38.804][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 19:42:38.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 19:42:38.805][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 19:42:38.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 19:42:38.807][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 19:42:38.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 17.332   0.986  19.593

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn2.4161.0483.596
ChebiEntry0.3320.0210.378