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This page was generated on 2025-10-31 12:04 -0400 (Fri, 31 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
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 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-30 13:45 -0400 (Thu, 30 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0400 (Wed, 29 Oct 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

CHECK results for biodbChebi on kjohnson3

To the developers/maintainers of the biodbChebi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.16.0.tar.gz
StartedAt: 2025-10-30 18:42:47 -0400 (Thu, 30 Oct 2025)
EndedAt: 2025-10-30 18:43:13 -0400 (Thu, 30 Oct 2025)
EllapsedTime: 26.4 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.16.0.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: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.16.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-30 18:43:05.854][biodb::testContext]
biodb.INFO [2025-10-30 18:43:05.855][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:05.856][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-30 18:43:05.856][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:05.856][biodb::testContext]
biodb.INFO [2025-10-30 18:43:05.859][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:05.860][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:05.863][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:05.864][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 18:43:05.864][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 18:43:05.864][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.865][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 18:43:05.871][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 18:43:05.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.872][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.DEBUG[2025-10-30 18:43:05.872][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 18:43:05.872][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 18:43:05.873][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.873][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 18:43:05.874][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 18:43:05.874][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 18:43:05.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.875][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 18:43:05.875][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 18:43:05.876][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 18:43:05.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.877][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 18:43:05.877][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 18:43:05.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.878][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 18:43:05.878][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 18:43:05.878][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 18:43:05.879][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.879][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 18:43:05.880][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 18:43:05.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.881][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 18:43:05.885][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 18:43:05.885][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 18:43:05.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.886][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:05.887][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 18:43:05.887][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 18:43:05.887][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 18:43:05.887][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 18:43:05.888][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 18:43:05.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.889][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 18:43:05.889][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 18:43:05.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.890][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 18:43:05.890][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 18:43:05.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.891][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 18:43:05.891][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 18:43:05.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.892][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 18:43:05.893][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 18:43:05.893][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 18:43:05.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.894][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.DEBUG[2025-10-30 18:43:05.894][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:05.894][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 18:43:05.899][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 18:43:05.900][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.900][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 18:43:05.901][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 18:43:05.901][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 18:43:05.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.901][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.902][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[2025-10-30 18:43:05.903][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 18:43:05.914][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.919][self$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[2025-10-30 18:43:05.919][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.920][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:05.920][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.920][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.920][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.921][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.921][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:05.921][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:05.922][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.922][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 18:43:05.922][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:05.922][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:05.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.924][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:05.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.925][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.925][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:05.926][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:05.926][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.926][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.926][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 18:43:05.927][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.927][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:05.927][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.928][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:05.928][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.929][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.929][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:05.929][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:05.930][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.930][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 18:43:05.930][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:05.930][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:05.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.932][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:05.932][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.932][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.933][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.933][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.933][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:05.933][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:05.934][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.934][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.934][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 18:43:05.935][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.935][self$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[2025-10-30 18:43:05.935][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.936][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:05.936][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.936][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.936][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.937][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.937][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:05.937][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:05.937][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.938][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 18:43:05.938][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:05.941][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.941][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.941][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.941][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:05.942][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.942][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:05.942][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.943][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.943][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.943][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.943][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:05.944][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:05.944][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.944][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.944][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 18:43:05.945][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.945][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:05.946][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.946][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:05.946][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.946][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.947][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.947][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.947][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:05.947][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:05.948][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.948][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 18:43:05.948][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:05.948][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.949][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:05.949][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.949][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:05.949][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.950][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:05.950][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:05.950][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:05.951][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:05.951][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.951][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:05.951][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:05.952][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:05.952][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:05.953][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:05.954][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.954][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[2025-10-30 18:43:05.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.959][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[2025-10-30 18:43:05.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.965][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[2025-10-30 18:43:05.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.967][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.DEBUG[2025-10-30 18:43:05.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.971][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[2025-10-30 18:43:05.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:05.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:05.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:05.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:05.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:05.972][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 18:43:05.974][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 18:43:05.974][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 18:43:05.975][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 18:43:05.975][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:05.976][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 18:43:05.976][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:05.976][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:05.977][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 18:43:05.977][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 18:43:05.978][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:05.978][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 18:43:05.978][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:05.979][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:05.979][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 18:43:05.979][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 18:43:05.980][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 18:43:05.980][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 18:43:05.981][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:05.981][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 18:43:05.981][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 18:43:05.982][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 18:43:05.982][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 18:43:05.982][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 18:43:05.983][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 18:43:05.983][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 18:43:05.983][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 18:43:05.984][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 18:43:05.984][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 18:43:05.985][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 18:43:05.985][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 18:43:05.985][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 18:43:05.986][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 18:43:05.988][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 18:43:05.989][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 18:43:05.989][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 18:43:05.990][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 18:43:05.990][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 18:43:05.990][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 18:43:05.991][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 18:43:05.991][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 18:43:05.992][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 18:43:05.992][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 18:43:05.992][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 18:43:05.993][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 18:43:05.993][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 18:43:05.994][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 18:43:05.994][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 18:43:05.994][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 18:43:05.995][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 18:43:05.995][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 18:43:05.996][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 18:43:05.996][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 18:43:05.996][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 18:43:05.997][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 18:43:05.997][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 18:43:05.997][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 18:43:05.998][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 18:43:05.998][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 18:43:05.999][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 18:43:05.999][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 18:43:05.999][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 18:43:06.000][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 18:43:06.000][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 18:43:06.000][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 18:43:06.001][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 18:43:06.001][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:06.001][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:06.002][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 18:43:06.002][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 18:43:06.003][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 18:43:06.003][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 18:43:06.003][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 18:43:06.004][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 18:43:06.004][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 18:43:06.004][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 18:43:06.005][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 18:43:06.005][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 18:43:06.006][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 18:43:06.006][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 18:43:06.006][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 18:43:06.007][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 18:43:06.007][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 18:43:06.009][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 18:43:06.009][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:06.011][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:06.011][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.011][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.015][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".
biodb.DEBUG[2025-10-30 18:43:06.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.021][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.DEBUG[2025-10-30 18:43:06.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.028][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.DEBUG[2025-10-30 18:43:06.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.029][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.036][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.DEBUG[2025-10-30 18:43:06.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:06.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:06.043][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:06.046][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 18:43:06.046][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:06.047][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 18:43:06.047][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:06.047][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:06.048][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:06.048][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:06.048][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:06.048][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 18:43:06.049][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 18:43:06.049][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:06.049][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:06.049][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 18:43:06.050][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:06.051][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:06.051][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:06.051][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:06.051][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 18:43:06.051][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:06.051][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:06.052][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:06.052][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:06.052][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:06.052][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:06.053][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 18:43:06.053][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 18:43:06.053][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:06.053][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:06.053][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:06.054][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 18:43:06.054][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 18:43:06.055][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:06.056][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:06.056][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 18:43:06.057][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:06.057][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:06.058][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:06.068][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 18:43:06.076][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 18:43:06.080][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.080][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-30 18:43:06.081][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.081][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:06.083][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-30 18:43:06.083][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:06.085][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:06.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:06.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:06.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.099][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.110][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.110][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.120][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.121][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.121][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.121][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.123][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.123][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.125][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.125][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.128][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.128][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.129][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:06.129][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.130][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:06.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.131][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.131][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.132][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.133][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.134][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.136][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:06.136][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.137][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.138][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.138][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.139][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:06.165][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-30 18:43:06.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.177][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.180][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.181][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.182][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-30 18:43:06.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-30 18:43:06.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.205][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-30 18:43:06.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-30 18:43:06.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.233][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.233][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.251][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.253][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.258][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.259][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.260][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.262][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.262][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.270][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.278][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.278][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.282][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.285][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.286][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.286][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.287][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.290][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.295][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.296][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.296][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.297][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.301][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.302][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.303][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.304][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.305][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.305][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.310][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.311][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.313][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.313][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.314][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.317][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.321][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.329][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.329][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.337][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.339][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.339][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.341][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.342][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.344][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.346][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.346][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.348][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.349][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.351][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.351][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.353][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.353][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.355][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.355][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.357][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.358][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.360][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.360][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:06.363][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.363][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-30 18:43:06.363][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.364][biodb::testThat]
biodb.DEBUG[2025-10-30 18:43:06.368][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-30 18:43:06.371][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:06.372][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:06.374][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-30 18:43:06.375][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:06.386][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:06.386][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:06.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:06.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:06.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:06.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:06.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:06.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:06.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:06.391][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.391][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.399][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.399][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.400][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:06.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:06.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.401][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.401][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.402][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:06.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:06.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.403][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.405][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.406][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.409][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.409][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.410][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:06.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.411][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:06.411][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.412][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.412][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:06.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.413][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.414][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.415][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.416][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.416][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.417][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.418][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:06.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.418][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.419][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:06.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:06.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.420][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.420][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:06.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:06.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:06.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:06.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:06.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:06.434][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-30 18:43:06.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-30 18:43:06.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-30 18:43:06.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-30 18:43:06.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-30 18:43:06.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-30 18:43:06.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-30 18:43:06.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:06.440][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.440][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-30 18:43:06.440][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.441][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:06.442][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.442][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.442][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:06.443][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-30 18:43:06.451][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.452][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:06.454][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-30 18:43:06.456][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 18:43:06.465][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:06.466][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 18:43:06.467][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:06.473][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 [2025-10-30 18:43:06.482][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:06.483][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:06.483][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:06.484][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-30 18:43:06.488][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.489][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:06.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.489][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.490][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.490][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.491][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:06.492][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.492][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-30 18:43:06.493][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.493][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:06.503][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.505][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.506][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:06.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:06.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:06.525][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 [2025-10-30 18:43:06.526][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:06.527][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:06.527][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-30 18:43:06.533][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.533][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-30 18:43:06.533][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.533][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:06.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.542][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.546][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.550][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.551][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.552][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-30 18:43:06.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-30 18:43:06.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.553][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-30 18:43:06.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-30 18:43:06.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.561][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:06.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:06.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:06.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:06.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.567][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.568][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-30 18:43:06.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.569][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-30 18:43:06.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-30 18:43:06.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:06.571][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-30 18:43:06.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-30 18:43:06.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:06.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:06.574][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.574][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-30 18:43:06.574][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.575][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.577][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.578][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-30 18:43:06.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.578][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.580][biodb::testThat]
biodb.INFO [2025-10-30 18:43:06.581][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-30 18:43:06.581][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:06.581][biodb::testThat]
biodb.DEBUG[2025-10-30 18:43:06.582][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-30 18:43:07.271][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-30 18:43:07.605][biodb::testThat]
biodb.INFO [2025-10-30 18:43:07.605][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-30 18:43:07.605][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:07.605][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:07.607][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.608][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.608][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.609][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.609][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:07.610][biodb::testThat]
biodb.INFO [2025-10-30 18:43:07.610][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-30 18:43:07.610][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:07.610][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:07.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.616][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:07.650][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 [2025-10-30 18:43:07.651][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:07.652][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:07.652][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:07.677][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 [2025-10-30 18:43:07.678][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:07.679][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:07.680][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-30 18:43:07.684][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 18:43:07.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 18:43:07.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:07.693][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 [2025-10-30 18:43:07.694][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:07.695][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 18:43:07.695][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.699][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[2025-10-30 18:43:07.699][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-30 18:43:07.715][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:07.715][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:07.716][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-30 18:43:07.717][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.717][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:07.717][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:07.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.721][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.721][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.722][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.723][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.724][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.725][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.726][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.726][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.726][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.728][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.728][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.729][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.730][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.731][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.732][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.732][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.732][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.733][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.733][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.733][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.734][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.735][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.738][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.739][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.740][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.741][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.741][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.742][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.743][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.743][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.744][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.754][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-30 18:43:07.757][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.758][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:07.760][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:07.761][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:07.762][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 18:43:07.762][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.779][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:07.780][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-30 18:43:07.781][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:07.781][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:07.782][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-30 18:43:07.783][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.783][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:07.784][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:07.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.788][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.788][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.790][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.790][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.791][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.791][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.792][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.793][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.794][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.795][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.795][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.796][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.797][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.797][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.799][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.799][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.800][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.800][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.801][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.801][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.802][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.806][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.807][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.807][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.808][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.808][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.810][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.810][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.811][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.812][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.812][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.812][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.822][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.824][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-30 18:43:07.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:07.834][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 [2025-10-30 18:43:07.835][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:07.836][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:07.836][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:07.850][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-30 18:43:07.851][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:07.851][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:07.852][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-30 18:43:07.853][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.853][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:07.854][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:07.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.858][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.860][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.861][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.861][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.862][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.862][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.863][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.864][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.864][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.865][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.865][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.866][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.866][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.866][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.868][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.868][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.868][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.869][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.870][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.870][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.871][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.872][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.873][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.879][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.887][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-30 18:43:07.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:07.897][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-30 18:43:07.897][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:07.898][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:07.899][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-30 18:43:07.899][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.900][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:07.900][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:07.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.904][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.905][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.906][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.907][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.907][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.908][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.908][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.908][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.909][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.909][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.910][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.910][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.910][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.913][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.913][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.914][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.914][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.915][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.915][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.916][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.916][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.916][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.917][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.918][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.919][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.919][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.920][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.921][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.922][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.930][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.933][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-30 18:43:07.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.941][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[2025-10-30 18:43:07.942][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-30 18:43:07.942][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:07.945][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:07.946][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-30 18:43:07.947][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.947][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:07.948][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:07.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.952][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.954][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:07.955][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:07.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.955][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:07.956][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:07.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.957][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:07.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:07.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.957][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.958][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.958][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:07.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.959][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.959][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:07.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.960][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:07.960][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.961][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.961][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:07.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.962][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.962][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:07.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:07.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.965][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:07.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:07.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.966][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:07.967][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:07.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:07.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.981][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-30 18:43:07.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:07.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:07.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:07.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:07.991][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-30 18:43:07.991][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:07.992][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:07.993][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-30 18:43:07.994][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:07.994][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:07.994][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:07.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:07.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:07.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:07.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:07.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:07.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:07.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:07.999][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:07.999][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:07.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:07.999][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.001][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.001][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.002][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.002][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.003][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.003][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.004][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.004][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.005][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.006][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.006][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.007][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.008][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.008][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.009][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.010][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.010][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.011][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.012][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.012][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.022][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.022][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.024][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.025][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.027][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.028][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.029][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.029][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.030][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.042][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-30 18:43:08.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.046][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.049][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-30 18:43:08.049][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.050][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.051][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-30 18:43:08.052][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.052][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.052][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.059][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.060][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.060][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.062][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.062][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.063][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.064][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.064][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.065][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.066][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.066][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.069][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.070][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.071][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.072][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.072][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.074][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.074][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.076][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.076][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.078][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.079][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.080][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.080][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.081][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.094][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-30 18:43:08.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.100][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-30 18:43:08.100][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.100][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.102][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-30 18:43:08.102][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.103][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.103][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.107][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.108][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.110][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.110][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.111][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.112][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.112][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.112][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.113][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.114][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.115][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.116][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.116][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.116][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.117][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.118][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.120][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.121][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.121][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.122][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.122][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.122][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.123][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.126][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.126][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.127][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.128][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.128][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.129][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.130][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.130][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.141][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-30 18:43:08.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.144][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.145][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.147][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.147][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-30 18:43:08.148][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.148][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.152][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-30 18:43:08.152][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.153][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.153][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.153][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.154][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.157][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.158][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.159][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.159][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.160][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.161][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.161][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.162][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.163][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.163][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.165][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.165][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.166][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.167][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.168][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.168][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.168][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.169][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.169][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.170][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.170][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.171][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.172][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.172][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.174][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.174][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.176][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.176][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.177][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.178][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.190][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-30 18:43:08.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.193][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.194][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.196][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-30 18:43:08.197][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.197][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.199][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-30 18:43:08.199][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.200][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.200][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.205][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.206][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.207][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.207][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.208][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.209][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.210][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.210][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.211][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.212][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.212][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.212][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.214][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.214][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.219][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.219][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.220][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.220][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.220][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.221][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.222][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.222][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.224][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.225][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.226][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.227][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.227][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.228][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.229][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.229][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.241][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-30 18:43:08.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.248][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[2025-10-30 18:43:08.250][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-30 18:43:08.250][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.251][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.253][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-30 18:43:08.253][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.253][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.254][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.258][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.258][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.260][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.260][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.261][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.261][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.262][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.263][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.263][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.265][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.265][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.267][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.267][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.269][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.269][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.270][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.273][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.274][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.277][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.279][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.297][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-30 18:43:08.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.304][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-30 18:43:08.304][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.305][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.306][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-30 18:43:08.306][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.307][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.307][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.311][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.312][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.314][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.314][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.316][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.316][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.317][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.318][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.319][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.323][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.326][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.327][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.327][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.328][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.329][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.330][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.332][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.332][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.334][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.334][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.335][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.336][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.336][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.337][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.349][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-30 18:43:08.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.353][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.359][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-30 18:43:08.360][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.360][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.361][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-30 18:43:08.361][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.362][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.362][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.366][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.367][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.367][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.368][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.369][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.369][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.370][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.371][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.371][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.372][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.373][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.374][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.374][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.375][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.375][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.376][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.376][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.377][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.377][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.379][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.379][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.380][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.381][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.381][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.382][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.383][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.396][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-30 18:43:08.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.402][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-30 18:43:08.402][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.402][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.403][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-30 18:43:08.403][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.404][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.404][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.407][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.408][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.409][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.410][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.411][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.412][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.412][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.412][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.413][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.414][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.414][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.414][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.415][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.415][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.416][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.416][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.416][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.419][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.420][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.420][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.422][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.422][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.424][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.424][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.425][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.426][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.426][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.436][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-30 18:43:08.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.442][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-30 18:43:08.442][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.442][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.444][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-30 18:43:08.445][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.445][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.446][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.446][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.453][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.454][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.455][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.455][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.457][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.457][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.458][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.458][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.459][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.461][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.461][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.462][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.463][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.463][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.464][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.464][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.465][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.465][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.466][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.466][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.466][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.468][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.468][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.468][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.470][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.470][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.470][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.471][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.472][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.473][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.485][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-30 18:43:08.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.491][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-30 18:43:08.491][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.492][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.493][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-30 18:43:08.493][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.494][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.494][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.498][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.498][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.498][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.500][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.500][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.500][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.501][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.501][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.502][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.502][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.503][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.504][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.504][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.505][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.506][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.507][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.507][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.510][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.510][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.511][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.511][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.511][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.512][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.513][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.514][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.515][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.515][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.516][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.516][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.517][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.517][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.518][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.518][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.519][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.529][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-30 18:43:08.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.535][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-30 18:43:08.535][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.536][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.539][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-30 18:43:08.540][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.541][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.546][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.548][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.549][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.551][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.551][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.551][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.553][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.553][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.553][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.554][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.555][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.555][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.557][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.558][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.558][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.559][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.559][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.560][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.561][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.561][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.563][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.563][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.563][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.565][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.565][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.566][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.567][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.568][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.568][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.583][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-30 18:43:08.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.590][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-30 18:43:08.591][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.591][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.592][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-30 18:43:08.593][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.593][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.594][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.596][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.598][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.601][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.602][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.603][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.604][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.605][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.605][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.606][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.606][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.607][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.607][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.612][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.612][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.613][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.614][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.614][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.615][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.616][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.617][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.618][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.618][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.620][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.620][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.621][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.621][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.622][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.622][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.623][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.635][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-30 18:43:08.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.644][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-30 18:43:08.645][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.645][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.647][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-30 18:43:08.647][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.647][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.648][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.651][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.651][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[2025-10-30 18:43:08.652][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.653][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.654][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.655][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.655][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.656][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.657][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.657][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.658][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.658][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.660][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.660][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.660][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.661][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.662][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.662][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.664][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.664][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.665][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.665][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.666][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.666][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.667][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.667][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.668][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.669][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.672][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.672][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.673][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.674][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.674][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.674][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.675][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.687][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.690][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-30 18:43:08.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.693][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.696][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-30 18:43:08.697][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.697][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.699][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-30 18:43:08.699][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.700][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.700][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.705][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.705][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.706][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.707][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.707][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.708][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.708][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.710][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.710][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.711][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.716][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.716][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.717][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.719][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.719][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.721][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.722][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.722][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.723][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.725][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.725][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.727][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.727][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.729][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.729][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.730][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.732][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.732][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.744][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-30 18:43:08.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.754][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-30 18:43:08.754][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.755][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.756][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-30 18:43:08.756][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.757][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.757][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.760][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.761][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.TRACE[2025-10-30 18:43:08.761][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.762][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.762][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.764][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.764][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:08.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:08.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.766][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.766][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:08.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:08.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.768][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.769][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:08.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:08.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.771][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:08.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.773][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.773][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:08.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.774][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.774][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.775][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:08.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.776][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.777][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.778][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.779][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.779][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:08.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:08.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.780][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.781][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.781][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.781][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:08.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:08.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.786][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.787][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:08.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:08.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.791][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:08.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.798][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-30 18:43:08.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.799][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:08.808][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:08.808][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:08.809][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:08.810][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.811][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.818][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.825][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.828][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.837][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.838][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.842][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.861][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.898][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.902][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.931][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.941][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:08.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:08.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:08.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:08.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:08.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:08.980][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:08.981][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:08.982][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-30 18:43:08.982][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:08.983][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:08.984][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:08.985][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-30 18:43:08.985][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.986][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:08.989][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-30 18:43:08.990][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:08.990][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:08.992][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-30 18:43:08.992][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:08.992][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:08.993][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:08.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:08.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:08.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:08.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:08.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:08.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:08.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:08.997][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:08.997][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:08.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.000][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.003][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:09.003][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:09.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.004][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.004][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:09.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:09.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.005][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:09.006][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:09.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.006][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:09.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:09.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.008][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:09.008][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:09.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.008][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.009][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:09.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:09.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.010][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.010][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.011][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.012][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:09.012][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:09.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.013][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.013][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:09.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:09.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.014][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:09.015][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.015][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.015][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:09.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.017][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.017][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:09.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:09.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.020][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:09.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:09.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.021][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:09.021][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:09.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.022][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.022][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:09.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:09.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.023][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:09.023][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:09.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.024][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:09.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:09.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.041][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-30 18:43:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.055][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:09.055][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-30 18:43:09.056][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:09.056][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:09.058][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-30 18:43:09.058][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.059][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:09.059][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:09.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.065][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.065][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.067][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:09.068][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:09.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.068][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:09.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:09.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.070][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:09.070][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:09.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.071][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:09.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:09.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.072][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:09.072][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:09.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:09.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:09.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.077][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.078][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:09.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:09.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:09.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.081][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.081][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:09.081][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.082][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:09.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.083][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.084][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.084][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.086][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:09.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:09.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:09.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:09.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.089][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:09.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:09.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.090][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.090][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:09.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.091][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:09.091][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:09.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.092][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.092][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:09.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:09.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:09.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:09.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.104][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-30 18:43:09.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:09.120][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.122][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.123][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:09.123][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.237][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.242][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.251][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.264][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.266][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.269][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:09.276][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.276][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.278][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-30 18:43:09.278][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.283][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.294][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.309][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.323][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.348][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.353][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.373][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.378][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.423][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.435][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:09.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:09.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:09.439][biodb::testThat]
biodb.INFO [2025-10-30 18:43:09.439][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-30 18:43:09.439][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:09.440][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:09.441][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 18:43:09.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 18:43:09.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.445][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.447][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:09.451][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.452][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.452][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 18:43:09.453][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:09.460][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.461][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.461][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 18:43:09.462][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.545][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 18:43:09.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.547][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.548][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.550][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.550][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.551][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.551][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.551][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.552][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.552][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.553][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.553][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.554][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.554][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.555][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.555][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.561][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-30 18:43:09.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.566][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.567][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.567][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.567][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.567][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.567][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.568][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.568][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.569][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.569][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.569][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.570][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.570][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.570][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.570][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.571][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.575][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 18:43:09.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.581][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.581][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.582][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.582][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.582][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.583][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.584][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.584][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.585][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.585][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.585][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.586][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.586][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.590][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-30 18:43:09.590][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 18:43:09.591][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 18:43:09.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.618][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.618][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:09.622][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.623][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.624][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-30 18:43:09.624][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:09.625][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.626][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.627][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-30 18:43:09.628][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.638][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.657][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 18:43:09.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.664][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.670][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.670][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.670][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.670][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.671][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.671][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.672][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.672][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.673][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.673][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.673][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.673][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.674][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.674][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.674][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.678][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-30 18:43:09.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.686][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.694][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.694][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.694][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.694][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.696][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.697][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.700][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.700][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.701][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.701][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.701][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.705][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 18:43:09.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.711][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.711][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.711][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.712][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.713][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.713][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.714][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.714][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.715][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.715][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.716][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.720][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.721][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-30 18:43:09.722][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 18:43:09.722][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 18:43:09.724][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:09.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:09.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:09.727][biodb::testThat]
biodb.INFO [2025-10-30 18:43:09.727][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-30 18:43:09.727][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:09.727][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:09.728][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 18:43:09.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 18:43:09.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:09.738][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.739][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.739][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 18:43:09.740][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:09.747][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.748][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.748][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 18:43:09.749][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.752][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.756][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.762][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 18:43:09.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.767][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.768][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.768][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.770][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.771][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.771][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.772][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.776][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-30 18:43:09.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.779][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.TRACE[2025-10-30 18:43:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.781][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.781][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.782][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.782][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.782][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.783][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.783][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.784][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.784][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.785][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.785][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.786][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.789][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 18:43:09.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.795][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.795][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.796][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.797][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.797][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.798][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.798][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.799][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.800][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.803][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-30 18:43:09.804][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 18:43:09.804][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 18:43:09.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:09.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.819][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.819][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-30 18:43:09.820][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:09.820][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.821][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.822][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-30 18:43:09.822][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.825][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.829][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.841][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 18:43:09.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.847][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.847][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.847][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.848][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.849][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.849][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.850][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.850][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.850][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.851][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.851][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.851][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.852][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.855][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-30 18:43:09.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.858][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.859][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.861][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.861][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.861][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.862][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.862][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.862][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.862][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.863][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.863][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.864][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.864][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.865][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.866][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.868][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.869][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 18:43:09.870][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.875][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.875][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.876][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.876][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.876][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.877][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.877][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.878][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.879][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.880][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.880][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.884][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-30 18:43:09.884][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 18:43:09.884][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 18:43:09.887][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:09.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:09.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:09.890][biodb::testThat]
biodb.INFO [2025-10-30 18:43:09.890][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-30 18:43:09.890][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:09.891][biodb::testThat]
biodb.TRACE[2025-10-30 18:43:09.892][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-30 18:43:09.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-30 18:43:09.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.901][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:09.902][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.903][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.903][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-30 18:43:09.904][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-30 18:43:09.913][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.914][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.915][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-30 18:43:09.915][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:09.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.929][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 18:43:09.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.930][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.932][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.935][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.935][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.935][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.936][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.936][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.937][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.938][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.938][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.939][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.939][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.943][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-30 18:43:09.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.948][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.949][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.949][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.949][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.949][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.950][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.950][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.951][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.951][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.952][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.952][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.953][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.957][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 18:43:09.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.957][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.962][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.962][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:09.963][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:09.963][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:09.963][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.963][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.964][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.964][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.965][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.966][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:09.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.967][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:09.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:09.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.970][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-30 18:43:09.971][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 18:43:09.971][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 18:43:09.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.980][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:09.986][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.987][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.988][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-30 18:43:09.988][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:09.989][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:09.990][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:09.990][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-30 18:43:09.991][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:09.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:09.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:09.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:09.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:09.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:09.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:09.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:09.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:09.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:09.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:09.998][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:09.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.014][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-30 18:43:10.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.017][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.020][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.020][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:10.020][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:10.021][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:10.021][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.022][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.022][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.023][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.023][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.024][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.024][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.024][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.025][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:10.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.028][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-30 18:43:10.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.034][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.034][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:10.035][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:10.035][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:10.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.035][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.036][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.036][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.037][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.038][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.039][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.039][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:10.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.042][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-30 18:43:10.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.048][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.048][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-30 18:43:10.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-30 18:43:10.049][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-30 18:43:10.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.050][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.051][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.051][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-30 18:43:10.052][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.052][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.053][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-30 18:43:10.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.056][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-30 18:43:10.056][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-30 18:43:10.056][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-30 18:43:10.062][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:10.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-30 18:43:10.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:10.064][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.065][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-30 18:43:10.065][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.065][biodb::testThat]
biodb.DEBUG[2025-10-30 18:43:10.066][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-30 18:43:10.066][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:10.066][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:10.067][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-30 18:43:10.068][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.068][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:10.068][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:10.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.069][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.072][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.073][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.075][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.076][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.076][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.077][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.077][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.078][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.079][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.079][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.080][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.080][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.081][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.081][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.083][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.083][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.084][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.084][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.084][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.085][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.086][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.098][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-30 18:43:10.098][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-30 18:43:10.101][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.101][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-30 18:43:10.102][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.102][biodb::testThat]
biodb.DEBUG[2025-10-30 18:43:10.105][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-30 18:43:10.105][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-30 18:43:10.106][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-30 18:43:10.106][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:10.107][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-30 18:43:10.108][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-30 18:43:10.109][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-30 18:43:10.110][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.110][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-30 18:43:10.110][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:10.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.114][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.115][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.117][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.117][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.117][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.118][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.118][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.119][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.119][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.120][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.120][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.121][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.121][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.121][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.122][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.122][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.122][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.123][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.123][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.124][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.124][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.125][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.125][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.126][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.126][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.126][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.127][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.135][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.138][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.138][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.140][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.140][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.141][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.142][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.143][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.143][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.145][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.145][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.145][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.147][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.149][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.149][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.149][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.150][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.151][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.151][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.152][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.153][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.155][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.155][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.156][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.157][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.157][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.158][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.158][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.172][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.172][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.174][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.174][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.175][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.176][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.176][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.177][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.177][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.178][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.180][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.181][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.182][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.183][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.183][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.183][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.187][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.187][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.188][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.188][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.189][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.189][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.191][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.191][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.193][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.193][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.195][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.196][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.213][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-30 18:43:10.213][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-30 18:43:10.214][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-30 18:43:10.218][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.218][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-30 18:43:10.218][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.219][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.226][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.227][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-30 18:43:10.227][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.227][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.229][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.230][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-30 18:43:10.230][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.230][biodb::testThat]
sched.DEBUG[2025-10-30 18:43:10.231][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:10.232][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.234][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-30 18:43:10.234][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-30 18:43:10.238][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.238][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.239][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.239][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.240][ef$get] fields variable is a list.
biodb.INFO [2025-10-30 18:43:10.240][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.241][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-30 18:43:10.241][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.241][biodb::testThat]
biodb.ERROR[2025-10-30 18:43:10.245][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-30 18:43:10.250][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-30 18:43:10.254][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 18:43:10.254][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 18:43:10.255][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 18:43:10.255][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.255][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.256][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 18:43:10.259][biodb::testContext]
biodb.INFO [2025-10-30 18:43:10.260][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:10.260][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-30 18:43:10.260][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:10.261][biodb::testContext]
biodb.INFO [2025-10-30 18:43:10.261][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:10.262][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:10.263][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.264][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 18:43:10.264][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.265][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.DEBUG[2025-10-30 18:43:10.265][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 18:43:10.265][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.266][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 18:43:10.266][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.267][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.DEBUG[2025-10-30 18:43:10.267][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 18:43:10.268][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 18:43:10.268][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.269][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 18:43:10.269][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 18:43:10.269][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.270][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 18:43:10.271][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.272][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 18:43:10.272][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 18:43:10.272][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 18:43:10.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.273][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 18:43:10.273][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.274][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 18:43:10.274][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 18:43:10.275][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.275][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[2025-10-30 18:43:10.276][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:10.276][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 18:43:10.276][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 18:43:10.276][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 18:43:10.277][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 18:43:10.277][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 18:43:10.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.278][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 18:43:10.278][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 18:43:10.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.282][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[2025-10-30 18:43:10.282][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 18:43:10.282][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 18:43:10.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.283][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 18:43:10.283][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.284][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 18:43:10.285][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 18:43:10.285][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 18:43:10.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.286][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:10.286][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 18:43:10.290][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 18:43:10.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.291][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[2025-10-30 18:43:10.291][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 18:43:10.292][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 18:43:10.292][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 18:43:10.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.293][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 18:43:10.293][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.294][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-30 18:43:10.294][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.295][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.295][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.295][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.295][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.296][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:10.296][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.296][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.296][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:10.297][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:10.298][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.298][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.298][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.298][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.299][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.299][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.299][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.299][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.300][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.300][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.300][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.300][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.301][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 18:43:10.301][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.301][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:10.302][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.302][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.302][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.302][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.303][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.303][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.303][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:10.303][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.304][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.304][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 18:43:10.304][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.304][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:10.305][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.306][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.306][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.306][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.306][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.306][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.307][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.307][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.307][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.307][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.308][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.308][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.308][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 18:43:10.309][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.309][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-30 18:43:10.309][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.310][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.310][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.310][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.310][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.311][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.311][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:10.311][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.311][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.312][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 18:43:10.312][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.312][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.312][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.313][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.313][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.313][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.313][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.314][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.314][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.314][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.314][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.315][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.315][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.315][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.315][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.315][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.316][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 18:43:10.316][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.317][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:10.317][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.317][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.317][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.318][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.318][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.318][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.319][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:10.319][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.319][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.319][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 18:43:10.320][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.320][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.320][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.320][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.321][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.321][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.321][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.321][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.322][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.322][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.322][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.323][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.323][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.323][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.324][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.324][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.324][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.324][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.335][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[2025-10-30 18:43:10.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.340][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.342][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[2025-10-30 18:43:10.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.344][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 18:43:10.344][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 18:43:10.344][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 18:43:10.345][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 18:43:10.345][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:10.345][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 18:43:10.346][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:10.346][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:10.347][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 18:43:10.347][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 18:43:10.347][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:10.348][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 18:43:10.348][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:10.349][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:10.349][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 18:43:10.349][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 18:43:10.350][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 18:43:10.350][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 18:43:10.350][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:10.351][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 18:43:10.351][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 18:43:10.352][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 18:43:10.352][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 18:43:10.352][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 18:43:10.353][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 18:43:10.353][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 18:43:10.353][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 18:43:10.354][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 18:43:10.354][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 18:43:10.355][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 18:43:10.355][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 18:43:10.355][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 18:43:10.356][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 18:43:10.356][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 18:43:10.356][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 18:43:10.357][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 18:43:10.357][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 18:43:10.357][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 18:43:10.358][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 18:43:10.358][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 18:43:10.359][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 18:43:10.359][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 18:43:10.359][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 18:43:10.360][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 18:43:10.360][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 18:43:10.360][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 18:43:10.361][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 18:43:10.361][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 18:43:10.362][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 18:43:10.362][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 18:43:10.362][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 18:43:10.363][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 18:43:10.363][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 18:43:10.363][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 18:43:10.364][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 18:43:10.364][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 18:43:10.365][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 18:43:10.365][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 18:43:10.365][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 18:43:10.366][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 18:43:10.366][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 18:43:10.366][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 18:43:10.367][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 18:43:10.369][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 18:43:10.370][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 18:43:10.370][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 18:43:10.371][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:10.371][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:10.371][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 18:43:10.372][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 18:43:10.372][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 18:43:10.372][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 18:43:10.373][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 18:43:10.373][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 18:43:10.374][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 18:43:10.374][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 18:43:10.374][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 18:43:10.375][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 18:43:10.375][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 18:43:10.375][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 18:43:10.376][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 18:43:10.376][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 18:43:10.376][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 18:43:10.377][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 18:43:10.377][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:10.378][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.378][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.379][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.382][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[2025-10-30 18:43:10.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.389][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[2025-10-30 18:43:10.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.389][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.398][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.DEBUG[2025-10-30 18:43:10.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.401][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[2025-10-30 18:43:10.401][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.405][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:10.405][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 18:43:10.406][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.406][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.407][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.407][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.407][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.407][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.408][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.408][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 18:43:10.408][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 18:43:10.408][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.409][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.409][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 18:43:10.409][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.410][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 18:43:10.411][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.411][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.411][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.411][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.412][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.412][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.412][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 18:43:10.412][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 18:43:10.412][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.413][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.413][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.413][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 18:43:10.413][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 18:43:10.413][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:10.414][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:10.414][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 18:43:10.415][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:10.415][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:10.416][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:10.417][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 18:43:10.418][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 18:43:10.419][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.419][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-30 18:43:10.419][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.419][biodb::testThat]
sched.DEBUG[2025-10-30 18:43:10.420][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 18:43:10.421][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.423][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 18:43:10.423][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:10.424][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 [2025-10-30 18:43:10.425][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.426][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-30 18:43:10.426][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:10.430][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 [2025-10-30 18:43:10.431][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.432][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-30 18:43:10.432][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.444][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".
sched.DEBUG[2025-10-30 18:43:10.445][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 [2025-10-30 18:43:10.446][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.447][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-30 18:43:10.447][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:10.451][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 [2025-10-30 18:43:10.452][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.452][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-30 18:43:10.453][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.459][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".
sched.DEBUG[2025-10-30 18:43:10.460][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 [2025-10-30 18:43:10.461][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.462][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-30 18:43:10.462][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-30 18:43:10.470][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 [2025-10-30 18:43:10.470][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.471][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-30 18:43:10.471][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.474][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.474][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".
sched.DEBUG[2025-10-30 18:43:10.475][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 [2025-10-30 18:43:10.476][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.476][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-30 18:43:10.477][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.480][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.INFO [2025-10-30 18:43:10.482][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.482][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-30 18:43:10.483][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.483][biodb::testThat]
sched.DEBUG[2025-10-30 18:43:10.484][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 [2025-10-30 18:43:10.485][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.486][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-30 18:43:10.486][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.489][FUN] Functions in observer 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[2025-10-30 18:43:10.491][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 [2025-10-30 18:43:10.491][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.492][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-30 18:43:10.493][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 18:43:10.498][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 18:43:10.498][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 18:43:10.498][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 18:43:10.498][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.499][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.499][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 18:43:10.501][biodb::testContext]
biodb.INFO [2025-10-30 18:43:10.501][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:10.501][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-30 18:43:10.502][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:10.502][biodb::testContext]
biodb.INFO [2025-10-30 18:43:10.503][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:10.503][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:10.505][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.505][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 18:43:10.505][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.506][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 18:43:10.507][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.507][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[2025-10-30 18:43:10.508][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 18:43:10.508][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.509][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 18:43:10.509][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 18:43:10.510][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.511][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 18:43:10.511][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 18:43:10.511][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.512][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 18:43:10.512][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.513][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 18:43:10.513][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 18:43:10.514][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 18:43:10.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.515][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 18:43:10.515][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.516][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 18:43:10.516][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 18:43:10.517][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.517][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:10.518][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 18:43:10.518][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 18:43:10.518][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 18:43:10.519][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 18:43:10.519][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 18:43:10.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.520][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 18:43:10.520][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 18:43:10.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.521][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 18:43:10.521][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 18:43:10.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.522][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 18:43:10.523][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.523][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 18:43:10.524][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 18:43:10.524][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 18:43:10.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.525][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.DEBUG[2025-10-30 18:43:10.525][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:10.526][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 18:43:10.531][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 18:43:10.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.532][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 18:43:10.532][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 18:43:10.533][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 18:43:10.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.534][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 18:43:10.534][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.534][self$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[2025-10-30 18:43:10.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.535][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.535][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.536][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.536][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:10.537][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.537][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.537][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 18:43:10.537][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:10.538][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.539][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.540][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.540][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.540][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.540][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.541][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.541][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.541][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.542][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 18:43:10.542][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.542][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:10.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.543][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.543][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.544][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.544][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:10.544][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.545][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.545][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 18:43:10.545][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:10.546][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.547][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.548][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.548][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.549][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.549][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.549][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.549][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 18:43:10.550][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.550][self$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[2025-10-30 18:43:10.550][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.551][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.551][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.551][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.552][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.552][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.552][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:10.552][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.553][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.553][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 18:43:10.553][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.553][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.554][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.554][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.554][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.554][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.555][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.555][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.555][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.555][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.556][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.556][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.556][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.556][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.557][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.557][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 18:43:10.557][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.558][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:10.558][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.558][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.559][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.559][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.559][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.559][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.560][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:10.560][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.560][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.560][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 18:43:10.561][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.561][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.561][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.561][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.562][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.562][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.562][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.563][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.566][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.566][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.566][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.566][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.567][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.567][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.567][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.567][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.573][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[2025-10-30 18:43:10.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.578][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[2025-10-30 18:43:10.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.586][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 18:43:10.586][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 18:43:10.587][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 18:43:10.587][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 18:43:10.587][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:10.588][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 18:43:10.588][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:10.588][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:10.589][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 18:43:10.589][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 18:43:10.590][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:10.590][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 18:43:10.590][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:10.591][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:10.591][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 18:43:10.591][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 18:43:10.592][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 18:43:10.592][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 18:43:10.592][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:10.593][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 18:43:10.593][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 18:43:10.594][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 18:43:10.594][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 18:43:10.594][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 18:43:10.595][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 18:43:10.595][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 18:43:10.595][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 18:43:10.596][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 18:43:10.596][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 18:43:10.597][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 18:43:10.597][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 18:43:10.597][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 18:43:10.598][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 18:43:10.598][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 18:43:10.598][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 18:43:10.599][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 18:43:10.599][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 18:43:10.599][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 18:43:10.600][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 18:43:10.600][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 18:43:10.600][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 18:43:10.601][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 18:43:10.601][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 18:43:10.602][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 18:43:10.602][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 18:43:10.602][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 18:43:10.603][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 18:43:10.603][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 18:43:10.603][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 18:43:10.604][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 18:43:10.604][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 18:43:10.604][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 18:43:10.605][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 18:43:10.605][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 18:43:10.606][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 18:43:10.606][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 18:43:10.606][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 18:43:10.607][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 18:43:10.607][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 18:43:10.607][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 18:43:10.608][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 18:43:10.608][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 18:43:10.608][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 18:43:10.609][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 18:43:10.609][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 18:43:10.610][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 18:43:10.610][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:10.610][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:10.611][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 18:43:10.611][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 18:43:10.611][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 18:43:10.612][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 18:43:10.612][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 18:43:10.612][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 18:43:10.613][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 18:43:10.613][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 18:43:10.613][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 18:43:10.614][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 18:43:10.614][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 18:43:10.615][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 18:43:10.615][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 18:43:10.616][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 18:43:10.616][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 18:43:10.616][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 18:43:10.617][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:10.617][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.618][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.618][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.623][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[2025-10-30 18:43:10.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.630][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[2025-10-30 18:43:10.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.631][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.DEBUG[2025-10-30 18:43:10.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.638][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[2025-10-30 18:43:10.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.640][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[2025-10-30 18:43:10.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.645][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[2025-10-30 18:43:10.648][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:10.648][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 18:43:10.649][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.649][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.649][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.650][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.650][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.650][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.651][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.651][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 18:43:10.651][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 18:43:10.651][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 18:43:10.652][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 18:43:10.653][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.653][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.653][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.653][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.653][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 18:43:10.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.654][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.654][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.655][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.655][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 18:43:10.655][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 18:43:10.655][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.655][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.656][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.656][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 18:43:10.656][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 18:43:10.656][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:10.657][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:10.657][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 18:43:10.658][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:10.658][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:10.658][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:10.660][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 18:43:10.661][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 18:43:10.662][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.662][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-30 18:43:10.662][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.663][biodb::testThat]
sched.DEBUG[2025-10-30 18:43:10.663][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 18:43:10.664][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.666][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 18:43:10.666][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:10.667][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-30 18:43:10.668][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.669][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-30 18:43:10.669][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-30 18:43:10.672][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 18:43:10.673][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 18:43:10.673][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 18:43:10.673][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.674][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.674][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-30 18:43:10.675][biodb::testContext]
biodb.INFO [2025-10-30 18:43:10.676][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:10.676][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-30 18:43:10.676][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-30 18:43:10.676][biodb::testContext]
biodb.INFO [2025-10-30 18:43:10.677][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:10.678][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:10.679][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.679][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-30 18:43:10.680][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.681][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-30 18:43:10.681][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.682][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-30 18:43:10.682][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.683][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[2025-10-30 18:43:10.683][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-30 18:43:10.683][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-30 18:43:10.683][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.684][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-30 18:43:10.685][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-30 18:43:10.685][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.685][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.686][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[2025-10-30 18:43:10.686][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-30 18:43:10.686][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.687][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-30 18:43:10.687][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-30 18:43:10.688][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-30 18:43:10.688][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.688][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[2025-10-30 18:43:10.689][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-30 18:43:10.689][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.690][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-30 18:43:10.690][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-30 18:43:10.690][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-30 18:43:10.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.691][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:10.691][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-30 18:43:10.692][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-30 18:43:10.692][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-30 18:43:10.692][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-30 18:43:10.692][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-30 18:43:10.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.693][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-30 18:43:10.694][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-30 18:43:10.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.694][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[2025-10-30 18:43:10.695][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-30 18:43:10.695][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-30 18:43:10.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.696][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-30 18:43:10.696][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-30 18:43:10.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.697][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-30 18:43:10.697][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-30 18:43:10.697][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-30 18:43:10.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.698][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-30 18:43:10.699][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-30 18:43:10.704][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-30 18:43:10.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.705][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-30 18:43:10.705][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-30 18:43:10.705][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-30 18:43:10.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.706][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-30 18:43:10.707][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.707][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-30 18:43:10.707][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.708][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.708][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.708][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.708][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.709][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.709][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:10.709][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.709][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.710][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-30 18:43:10.710][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.710][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.710][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.711][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.711][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.712][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.712][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.712][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.712][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.713][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.713][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.713][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.713][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.714][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.714][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-30 18:43:10.715][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.715][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:10.715][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.715][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.716][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.716][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.716][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.716][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.717][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:10.717][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.717][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.717][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-30 18:43:10.718][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.718][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.718][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.719][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.720][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.720][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.720][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.720][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.721][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.721][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.721][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.721][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.721][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.722][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-30 18:43:10.722][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.723][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-30 18:43:10.723][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.723][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.723][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.724][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.724][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.724][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-30 18:43:10.725][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.725][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.725][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-30 18:43:10.725][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.726][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.726][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.726][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.726][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.727][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.727][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.727][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.728][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.728][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.728][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.728][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.729][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.729][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.729][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.729][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-30 18:43:10.730][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.730][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-30 18:43:10.730][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.731][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.731][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.731][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.731][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.732][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.732][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-30 18:43:10.732][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.732][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.733][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-30 18:43:10.733][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.733][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.733][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.734][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.734][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-30 18:43:10.734][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.734][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.735][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.735][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.735][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.735][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.736][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.736][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.736][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.736][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.737][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-30 18:43:10.737][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.737][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.747][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.748][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[2025-10-30 18:43:10.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.750][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[2025-10-30 18:43:10.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.755][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[2025-10-30 18:43:10.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.760][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-30 18:43:10.760][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-30 18:43:10.761][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-30 18:43:10.761][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-30 18:43:10.761][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:10.762][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-30 18:43:10.762][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:10.763][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:10.763][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-30 18:43:10.763][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-30 18:43:10.764][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:10.764][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-30 18:43:10.764][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-30 18:43:10.765][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-30 18:43:10.765][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-30 18:43:10.765][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-30 18:43:10.766][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-30 18:43:10.766][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-30 18:43:10.767][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:10.767][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-30 18:43:10.767][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-30 18:43:10.768][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-30 18:43:10.768][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-30 18:43:10.768][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-30 18:43:10.769][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-30 18:43:10.769][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-30 18:43:10.769][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-30 18:43:10.770][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-30 18:43:10.770][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-30 18:43:10.771][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-30 18:43:10.771][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-30 18:43:10.774][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-30 18:43:10.774][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-30 18:43:10.775][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-30 18:43:10.775][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-30 18:43:10.775][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-30 18:43:10.776][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-30 18:43:10.776][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-30 18:43:10.777][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-30 18:43:10.777][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-30 18:43:10.777][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-30 18:43:10.778][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-30 18:43:10.778][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-30 18:43:10.779][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-30 18:43:10.779][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-30 18:43:10.780][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-30 18:43:10.782][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-30 18:43:10.782][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-30 18:43:10.783][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-30 18:43:10.783][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-30 18:43:10.784][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-30 18:43:10.785][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-30 18:43:10.786][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-30 18:43:10.786][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-30 18:43:10.786][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-30 18:43:10.787][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-30 18:43:10.787][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-30 18:43:10.788][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-30 18:43:10.788][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-30 18:43:10.789][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-30 18:43:10.789][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-30 18:43:10.789][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-30 18:43:10.790][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-30 18:43:10.790][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-30 18:43:10.791][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-30 18:43:10.791][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-30 18:43:10.792][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:10.792][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:10.793][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-30 18:43:10.793][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-30 18:43:10.793][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-30 18:43:10.794][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-30 18:43:10.794][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-30 18:43:10.794][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-30 18:43:10.795][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-30 18:43:10.795][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-30 18:43:10.796][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-30 18:43:10.796][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-30 18:43:10.796][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-30 18:43:10.797][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-30 18:43:10.797][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-30 18:43:10.797][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-30 18:43:10.798][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-30 18:43:10.798][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-30 18:43:10.799][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-30 18:43:10.799][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-30 18:43:10.799][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.800][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.800][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.DEBUG[2025-10-30 18:43:10.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.802][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.DEBUG[2025-10-30 18:43:10.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.808][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".
biodb.DEBUG[2025-10-30 18:43:10.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.813][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.DEBUG[2025-10-30 18:43:10.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.816][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.DEBUG[2025-10-30 18:43:10.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-30 18:43:10.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-30 18:43:10.826][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-30 18:43:10.827][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-30 18:43:10.827][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.828][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.828][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.828][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-30 18:43:10.828][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.829][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.829][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.829][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-30 18:43:10.829][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-30 18:43:10.830][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-30 18:43:10.830][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.830][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-30 18:43:10.833][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-30 18:43:10.834][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-30 18:43:10.834][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-30 18:43:10.834][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-30 18:43:10.834][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-30 18:43:10.834][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-30 18:43:10.835][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.835][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.835][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-30 18:43:10.835][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-30 18:43:10.835][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-30 18:43:10.836][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-30 18:43:10.836][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-30 18:43:10.836][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-30 18:43:10.836][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-30 18:43:10.836][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-30 18:43:10.837][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-30 18:43:10.837][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-30 18:43:10.837][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-30 18:43:10.837][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-30 18:43:10.838][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-30 18:43:10.838][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-30 18:43:10.838][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-30 18:43:10.839][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-30 18:43:10.839][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-30 18:43:10.840][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-30 18:43:10.842][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-30 18:43:10.843][biodb::testThat]
biodb.INFO [2025-10-30 18:43:10.843][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-30 18:43:10.843][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-30 18:43:10.843][biodb::testThat]
sched.DEBUG[2025-10-30 18:43:10.844][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-30 18:43:10.845][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.847][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-30 18:43:10.847][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-30 18:43:10.848][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 [2025-10-30 18:43:10.849][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-30 18:43:10.850][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-30 18:43:10.850][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.851][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-30 18:43:10.854][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-30 18:43:10.855][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-30 18:43:10.857][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-30 18:43:10.858][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-30 18:43:10.858][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-30 18:43:10.859][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-30 18:43:10.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-30 18:43:10.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-30 18:43:10.863][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.864][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.864][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.866][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.867][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.868][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-30 18:43:10.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-30 18:43:10.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.869][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.869][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.870][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-30 18:43:10.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-30 18:43:10.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.871][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-30 18:43:10.871][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-30 18:43:10.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.872][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.872][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.873][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-30 18:43:10.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.873][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.874][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.874][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.874][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-30 18:43:10.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.876][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.876][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.877][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-30 18:43:10.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-30 18:43:10.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.878][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-30 18:43:10.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.880][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.881][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.881][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.882][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-30 18:43:10.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-30 18:43:10.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.883][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.883][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.884][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-30 18:43:10.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-30 18:43:10.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.885][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.885][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.886][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-30 18:43:10.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-30 18:43:10.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-30 18:43:10.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-30 18:43:10.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-30 18:43:10.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-30 18:43:10.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-30 18:43:10.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-30 18:43:10.898][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-30 18:43:10.899][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-30 18:43:10.899][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-30 18:43:10.899][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-30 18:43:10.900][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-30 18:43:10.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-30 18:43:10.900][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-30 18:43:10.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-30 18:43:10.901][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-30 18:43:10.901][FUN] Functions in observer 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 
  4.516   0.244   5.784

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.6970.2180.958
ChebiEntry0.0850.0070.094