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This page was generated on 2025-09-04 12:06 -0400 (Thu, 04 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4822
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4617
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4564
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4541
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 206/2321HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-09-03 13:45 -0400 (Wed, 03 Sep 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on 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: 1.15.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-09-03 18:22:17 -0400 (Wed, 03 Sep 2025)
EndedAt: 2025-09-03 18:22:46 -0400 (Wed, 03 Sep 2025)
EllapsedTime: 28.4 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_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-06-14 r88325)
* 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 ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-06-14 r88325) -- "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 [2025-09-03 18:22:35.709][biodb::testContext]
biodb.INFO [2025-09-03 18:22:35.711][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:35.711][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-03 18:22:35.711][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:35.711][biodb::testContext]
biodb.INFO [2025-09-03 18:22:35.714][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:35.715][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:35.718][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:35.718][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 18:22:35.718][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 18:22:35.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.719][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 18:22:35.725][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 18:22:35.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.726][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 18:22:35.727][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 18:22:35.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.728][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 18:22:35.728][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 18:22:35.728][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 18:22:35.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.729][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 18:22:35.729][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 18:22:35.730][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 18:22:35.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.731][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 18:22:35.731][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 18:22:35.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.732][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 18:22:35.732][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 18:22:35.732][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 18:22:35.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.733][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 18:22:35.734][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 18:22:35.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.735][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 18:22:35.735][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 18:22:35.735][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 18:22:35.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.736][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:35.737][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 18:22:35.737][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 18:22:35.737][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 18:22:35.737][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 18:22:35.738][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 18:22:35.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.739][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 18:22:35.739][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 18:22:35.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.740][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 18:22:35.740][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 18:22:35.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.741][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 18:22:35.741][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 18:22:35.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.742][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 18:22:35.743][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 18:22:35.743][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 18:22:35.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.744][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[2025-09-03 18:22:35.744][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:35.744][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 18:22:35.750][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 18:22:35.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.751][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 18:22:35.752][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 18:22:35.752][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 18:22:35.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.753][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[2025-09-03 18:22:35.754][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 18:22:35.769][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.774][self$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[2025-09-03 18:22:35.774][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.775][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:35.775][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.775][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.776][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.776][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:35.776][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:35.776][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.777][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 18:22:35.777][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:35.777][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.777][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:35.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.778][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.779][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:35.779][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.779][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.779][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.779][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.780][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:35.780][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:35.780][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.780][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.781][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 18:22:35.781][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.782][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:35.782][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.782][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:35.782][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.783][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.783][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.783][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.783][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:35.783][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:35.784][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.784][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 18:22:35.784][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:35.785][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:35.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.786][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.786][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:35.786][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.787][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.787][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.787][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:35.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:35.788][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.788][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.788][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 18:22:35.789][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.789][self$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[2025-09-03 18:22:35.789][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.790][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:35.790][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.790][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.790][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.791][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.791][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:35.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:35.791][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.792][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 18:22:35.792][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:35.792][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.792][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.793][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.793][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:35.793][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.794][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:35.794][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.794][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.794][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.795][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.795][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:35.795][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:35.795][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.796][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.796][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 18:22:35.796][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.797][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:35.797][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.797][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:35.797][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.798][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.798][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.798][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.798][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:35.799][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:35.799][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.799][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 18:22:35.799][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:35.800][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.800][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.800][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.800][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:35.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.801][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.801][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:35.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.802][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.802][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:35.802][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:35.803][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.803][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:35.804][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:35.805][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.805][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[2025-09-03 18:22:35.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.807][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[2025-09-03 18:22:35.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.808][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[2025-09-03 18:22:35.809][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.810][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[2025-09-03 18:22:35.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.811][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[2025-09-03 18:22:35.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.815][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[2025-09-03 18:22:35.815][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.816][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[2025-09-03 18:22:35.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.817][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".
biodb.DEBUG[2025-09-03 18:22:35.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.818][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[2025-09-03 18:22:35.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.821][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[2025-09-03 18:22:35.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.822][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[2025-09-03 18:22:35.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.824][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[2025-09-03 18:22:35.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.825][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 18:22:35.827][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 18:22:35.828][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 18:22:35.828][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 18:22:35.828][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:35.829][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 18:22:35.829][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:35.830][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:35.830][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 18:22:35.830][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 18:22:35.831][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:35.831][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 18:22:35.831][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:35.832][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:35.832][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 18:22:35.833][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 18:22:35.833][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 18:22:35.833][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 18:22:35.834][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:35.834][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 18:22:35.834][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 18:22:35.835][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 18:22:35.835][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 18:22:35.836][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 18:22:35.836][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 18:22:35.836][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 18:22:35.837][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 18:22:35.837][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 18:22:35.837][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 18:22:35.838][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 18:22:35.838][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 18:22:35.838][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 18:22:35.839][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 18:22:35.839][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 18:22:35.840][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 18:22:35.840][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 18:22:35.840][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 18:22:35.841][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 18:22:35.841][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 18:22:35.841][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 18:22:35.842][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 18:22:35.842][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 18:22:35.842][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 18:22:35.843][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 18:22:35.843][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 18:22:35.844][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 18:22:35.844][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 18:22:35.844][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 18:22:35.845][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 18:22:35.845][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 18:22:35.845][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 18:22:35.846][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 18:22:35.846][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 18:22:35.846][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 18:22:35.847][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 18:22:35.847][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 18:22:35.848][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 18:22:35.848][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 18:22:35.848][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 18:22:35.849][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 18:22:35.849][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 18:22:35.849][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 18:22:35.850][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 18:22:35.850][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 18:22:35.850][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 18:22:35.851][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 18:22:35.851][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:35.851][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:35.852][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 18:22:35.852][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 18:22:35.853][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 18:22:35.853][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 18:22:35.853][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 18:22:35.854][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 18:22:35.854][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 18:22:35.854][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 18:22:35.855][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 18:22:35.855][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 18:22:35.855][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 18:22:35.856][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 18:22:35.856][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 18:22:35.857][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 18:22:35.857][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 18:22:35.859][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 18:22:35.859][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:35.861][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:35.861][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.861][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.872][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[2025-09-03 18:22:35.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.872][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.873][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[2025-09-03 18:22:35.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.875][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[2025-09-03 18:22:35.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.880][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[2025-09-03 18:22:35.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.886][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[2025-09-03 18:22:35.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:35.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:35.892][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:35.895][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 18:22:35.896][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.896][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.896][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.897][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:35.897][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.897][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.897][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.898][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 18:22:35.898][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 18:22:35.898][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:35.898][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 18:22:35.899][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 18:22:35.900][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:35.900][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:35.900][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:35.900][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:35.900][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 18:22:35.900][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.901][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:35.901][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:35.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:35.902][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:35.902][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 18:22:35.902][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 18:22:35.902][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:35.902][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:35.903][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:35.903][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 18:22:35.903][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 18:22:35.905][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:35.905][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:35.906][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 18:22:35.906][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:35.907][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:35.907][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:35.917][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 18:22:35.926][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 18:22:35.930][biodb::testThat]
biodb.INFO [2025-09-03 18:22:35.931][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-03 18:22:35.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:35.931][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:35.933][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-03 18:22:35.933][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:35.935][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:35.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:35.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:35.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:35.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:35.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:35.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:35.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:35.948][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:35.948][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:35.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.949][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:35.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:35.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.954][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:35.954][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:35.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.955][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.963][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:35.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:35.965][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:35.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:35.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:35.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.967][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:35.967][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:35.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.968][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:35.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:35.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.969][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:35.970][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:35.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.970][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.970][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:35.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:35.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.971][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:35.972][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:35.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.972][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.973][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:35.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:35.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.974][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:35.974][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:35.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.974][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:35.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:35.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.976][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:35.976][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:35.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:35.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:35.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.978][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:35.978][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:35.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.979][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:35.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.985][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:35.985][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:35.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.986][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.986][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:35.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:35.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.987][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:35.988][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:35.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.988][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.988][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:35.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:35.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:35.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:35.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:35.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:35.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:35.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:35.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:35.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:35.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:35.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:35.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:35.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:35.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:35.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:35.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:35.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:36.010][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-03 18:22:36.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.012][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.027][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.028][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.029][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 18:22:36.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 18:22:36.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.030][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 18:22:36.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 18:22:36.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.056][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.057][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.064][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.065][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.073][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.074][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.075][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.075][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.076][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.082][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.083][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.083][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.084][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.091][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.091][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.091][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.098][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.099][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.103][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.104][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.105][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.106][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.106][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.107][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.107][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.110][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.129][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.131][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.131][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.131][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.132][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.135][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.136][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.138][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.139][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.139][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.142][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.144][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.146][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.146][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.152][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.153][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.154][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.161][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.161][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.165][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.165][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.167][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.168][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.168][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.172][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.172][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.173][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.174][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.175][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.177][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.177][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.178][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.179][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.180][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.181][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.182][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.182][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.183][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.186][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.186][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.188][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.190][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.191][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.191][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:36.194][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.194][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-03 18:22:36.194][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.194][biodb::testThat]
biodb.DEBUG[2025-09-03 18:22:36.199][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-03 18:22:36.203][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:36.204][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:36.206][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-03 18:22:36.207][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:36.214][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:36.214][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:36.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:36.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:36.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:36.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:36.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:36.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:36.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:36.218][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.219][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.219][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.228][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.229][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.229][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.230][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:36.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:36.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.231][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:36.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:36.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.233][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.233][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.234][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.235][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.235][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.236][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.237][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.238][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.238][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:36.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.239][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:36.240][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.240][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:36.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.242][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.244][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.244][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.244][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.245][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.246][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:36.246][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.246][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.247][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:36.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:36.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.248][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.248][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.249][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.249][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:36.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:36.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:36.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:36.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:36.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:36.262][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-03 18:22:36.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-03 18:22:36.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-03 18:22:36.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-03 18:22:36.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-03 18:22:36.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-03 18:22:36.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-03 18:22:36.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:36.269][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.269][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-03 18:22:36.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.270][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:36.270][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.271][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.271][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:36.272][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-03 18:22:36.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.281][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.282][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:36.284][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-03 18:22:36.286][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 18:22:36.292][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:36.294][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 18:22:36.295][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:36.301][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 [2025-09-03 18:22:36.313][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:36.314][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:36.314][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:36.315][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-03 18:22:36.319][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:36.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.320][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.320][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.321][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.321][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:36.323][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.323][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-03 18:22:36.323][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.323][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:36.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.332][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:36.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:36.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:36.354][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 [2025-09-03 18:22:36.355][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:36.356][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:36.356][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-03 18:22:36.362][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.362][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-03 18:22:36.362][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.362][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:36.369][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.372][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.376][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.377][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 18:22:36.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 18:22:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.378][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 18:22:36.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 18:22:36.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.385][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:36.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:36.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:36.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:36.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.396][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 18:22:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.397][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 18:22:36.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 18:22:36.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:36.398][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 18:22:36.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 18:22:36.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:36.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:36.401][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.401][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-03 18:22:36.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.402][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.404][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.405][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-03 18:22:36.405][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.405][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.407][biodb::testThat]
biodb.INFO [2025-09-03 18:22:36.408][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-03 18:22:36.408][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:36.408][biodb::testThat]
biodb.DEBUG[2025-09-03 18:22:36.409][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-03 18:22:37.340][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-03 18:22:39.237][biodb::testThat]
biodb.INFO [2025-09-03 18:22:39.238][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-03 18:22:39.238][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:39.238][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:39.240][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.240][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.241][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.242][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:39.243][biodb::testThat]
biodb.INFO [2025-09-03 18:22:39.243][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-03 18:22:39.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:39.243][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:39.247][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.249][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:39.287][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 [2025-09-03 18:22:39.288][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:39.289][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:39.289][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:39.318][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 [2025-09-03 18:22:39.319][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:39.320][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:39.320][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-03 18:22:39.325][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 18:22:39.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 18:22:39.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:39.335][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 [2025-09-03 18:22:39.336][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:39.338][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 18:22:39.338][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.342][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[2025-09-03 18:22:39.342][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-03 18:22:39.360][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.361][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.362][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-03 18:22:39.362][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.363][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.363][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.367][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.368][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.368][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.370][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.370][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.372][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.372][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.374][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.374][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.376][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.377][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.377][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.378][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.379][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.379][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.380][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.381][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.382][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.382][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.382][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.384][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.385][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.386][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.389][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.389][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.390][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.391][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.392][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.403][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-03 18:22:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:39.410][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:39.411][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:39.412][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 18:22:39.412][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.431][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-03 18:22:39.431][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.432][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.433][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-03 18:22:39.434][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.434][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.434][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.439][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.439][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.440][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.441][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.441][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.442][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.443][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.444][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.444][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.445][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.446][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.446][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.447][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.448][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.448][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.449][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.450][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.450][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.451][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.451][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.451][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.452][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.452][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.453][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.454][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.456][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.456][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.456][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.458][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.458][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.460][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.461][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.461][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.477][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-03 18:22:39.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:39.487][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 [2025-09-03 18:22:39.488][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:39.489][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:39.490][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.493][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.494][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.500][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-03 18:22:39.501][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.501][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.502][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-03 18:22:39.502][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.503][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.503][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.506][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.TRACE[2025-09-03 18:22:39.507][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.510][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.511][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.512][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.512][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.513][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.513][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.513][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.514][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.514][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.515][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.515][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.515][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.516][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.516][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.516][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.517][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.517][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.518][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.518][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.518][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.519][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.519][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.519][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.520][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.520][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.520][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.522][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.522][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.523][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.523][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.524][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.524][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.525][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.526][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.535][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-03 18:22:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.547][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-03 18:22:39.547][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.547][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.549][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-03 18:22:39.549][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.550][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.550][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.554][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.554][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.555][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.556][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.557][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.557][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.558][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.558][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.558][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.559][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.559][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.559][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.560][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.560][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.561][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.561][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.561][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.562][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.562][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.562][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.563][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.563][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.564][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.564][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.564][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.565][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.565][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.567][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.567][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.567][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.569][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.569][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.569][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.582][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-03 18:22:39.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.592][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-03 18:22:39.592][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.592][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.594][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-03 18:22:39.594][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.594][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.595][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.595][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.599][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.599][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.600][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.601][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.601][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.602][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.602][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.603][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.603][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.604][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.604][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.605][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.605][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.606][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.606][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.606][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.607][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.607][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.607][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.608][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.608][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.609][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.609][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.610][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.610][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.611][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.611][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.612][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.613][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.613][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.614][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.627][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-03 18:22:39.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.636][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-03 18:22:39.636][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.637][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.639][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-03 18:22:39.639][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.639][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.640][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.641][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.644][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.644][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.646][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.646][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.647][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.648][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.649][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.649][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.650][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.651][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.651][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.653][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.653][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.653][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.654][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.655][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.656][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.656][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.660][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.660][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.660][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.661][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.662][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.662][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.663][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.664][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.666][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.667][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.667][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.668][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.669][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.669][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.670][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.681][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-03 18:22:39.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.685][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.688][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[2025-09-03 18:22:39.688][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-03 18:22:39.688][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.689][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.691][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-03 18:22:39.691][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.691][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.699][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.TRACE[2025-09-03 18:22:39.700][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.700][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.701][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.702][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.703][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.703][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.704][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.710][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.711][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.713][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.713][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.716][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.716][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.718][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.718][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.719][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.720][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.721][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.721][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.722][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.724][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.727][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.727][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.727][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.728][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.729][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.730][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.730][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.731][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.732][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.738][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.747][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-03 18:22:39.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.751][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.755][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-03 18:22:39.756][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.756][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.758][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-03 18:22:39.758][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.758][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.759][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.763][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.764][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.766][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.766][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.766][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.767][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.768][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.769][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.773][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.773][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.775][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.776][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.776][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.777][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.777][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.778][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.779][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.781][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.781][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.784][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.786][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.786][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.787][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.787][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.788][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.788][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.789][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.789][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.803][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-03 18:22:39.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.810][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[2025-09-03 18:22:39.811][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-03 18:22:39.811][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.812][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.813][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-03 18:22:39.813][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.814][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.814][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.819][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.820][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.821][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.822][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.822][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.823][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.834][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.834][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.836][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.836][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.838][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.839][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.841][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.841][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.842][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.842][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.842][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.843][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.843][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.845][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.845][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.845][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.847][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.847][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.848][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.849][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.850][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.850][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.852][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.852][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.852][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.853][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.865][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-03 18:22:39.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.875][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-03 18:22:39.875][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.876][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.877][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-03 18:22:39.878][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.878][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.878][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.882][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.883][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.885][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.885][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.885][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.886][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.887][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.887][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.888][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.888][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.889][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.889][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.890][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.890][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.891][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.891][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.892][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.893][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.893][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.893][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.894][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.894][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.895][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.897][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.898][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.899][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.900][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.900][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.901][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.901][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.902][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.902][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.903][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.903][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.915][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.918][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-03 18:22:39.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.925][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-03 18:22:39.925][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.925][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.927][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-03 18:22:39.927][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.927][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.928][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.928][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.930][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.932][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.932][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.934][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.934][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.935][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.936][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.937][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.938][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.939][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.939][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.940][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.941][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.941][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.943][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.943][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.943][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.944][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.944][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.944][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.945][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.946][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.949][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.949][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.951][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.951][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.952][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:39.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:39.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.953][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.954][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:39.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.955][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.956][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.956][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:39.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:39.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:39.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.968][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-03 18:22:39.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:39.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:39.975][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-03 18:22:39.975][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:39.975][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:39.977][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-03 18:22:39.977][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:39.977][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:39.978][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:39.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:39.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:39.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:39.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:39.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:39.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:39.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:39.982][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.982][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:39.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.984][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.986][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.987][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.988][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:39.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:39.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.989][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.989][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.989][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.990][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:39.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.991][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.991][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.991][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:39.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:39.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.993][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.993][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.994][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:39.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.995][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:39.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.995][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.996][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.996][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.997][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:39.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:39.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.998][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.998][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:39.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:39.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:39.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.000][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.000][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.000][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.001][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.002][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.002][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.003][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.003][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.004][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.004][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.004][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.005][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.015][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-03 18:22:40.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.024][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[2025-09-03 18:22:40.025][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-03 18:22:40.025][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.025][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.026][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-03 18:22:40.027][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.027][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.027][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.031][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.TRACE[2025-09-03 18:22:40.032][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.032][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.033][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.034][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.034][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.035][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.035][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.036][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.037][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.037][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.037][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.039][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.039][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.040][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.040][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.040][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.041][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.041][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.041][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.042][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.042][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.042][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.043][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.044][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.044][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.045][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.046][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.047][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.048][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.048][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.049][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.049][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.050][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.051][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.054][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.065][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-03 18:22:40.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.072][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-03 18:22:40.072][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.072][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.073][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-03 18:22:40.074][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.074][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.075][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.079][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.080][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.080][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.082][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.082][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.082][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.084][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.084][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.085][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.086][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.087][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.087][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.087][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.088][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.088][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.089][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.089][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.089][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.090][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.090][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.091][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.091][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.092][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.092][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.093][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.094][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.098][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.098][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.100][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.101][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.102][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.102][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.103][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.106][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.114][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-03 18:22:40.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.117][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.121][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-03 18:22:40.121][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.121][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.123][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-03 18:22:40.123][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.124][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.128][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.129][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.129][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.130][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.131][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.132][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.133][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.134][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.134][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.135][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.139][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.140][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.140][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.142][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.142][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.143][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.143][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.145][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.146][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.146][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.148][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.148][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.150][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.150][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.151][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.151][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.152][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.152][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.153][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.153][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.154][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.155][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.155][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.155][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.167][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-03 18:22:40.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.168][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.177][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-03 18:22:40.178][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.178][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.180][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-03 18:22:40.180][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.181][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.181][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.186][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.186][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.187][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.188][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.189][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.189][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.191][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.191][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.192][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.192][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.193][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.193][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.194][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.196][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.196][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.196][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.197][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.198][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.198][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.201][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.202][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.202][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.203][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.204][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.204][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.205][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.206][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.207][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.207][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.209][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.209][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.212][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.212][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.229][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-03 18:22:40.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.233][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.236][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-03 18:22:40.237][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.237][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.239][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-03 18:22:40.239][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.240][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.240][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.241][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.244][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.244][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[2025-09-03 18:22:40.245][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.245][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.245][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.247][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.247][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.248][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.248][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.249][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.249][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.250][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.250][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.251][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.252][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.253][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.254][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.254][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.255][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.256][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.256][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.257][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.257][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.257][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.258][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.261][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.262][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.262][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.264][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.264][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.265][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.266][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.266][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.267][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.269][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.269][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.282][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-03 18:22:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.289][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-03 18:22:40.290][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.290][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.292][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-03 18:22:40.292][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.293][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.293][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.298][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.298][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.303][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.303][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.304][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.305][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.306][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.306][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.308][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.308][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.308][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.310][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.311][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.311][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.312][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.312][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.313][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.313][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.313][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.314][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.314][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.316][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.317][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.318][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.318][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.319][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.320][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.320][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.320][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.322][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.323][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.323][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.335][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-03 18:22:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.345][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.DEBUG[2025-09-03 18:22:40.345][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-03 18:22:40.346][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.346][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.348][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-03 18:22:40.348][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.348][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.349][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.352][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[2025-09-03 18:22:40.353][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.353][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.354][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.355][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.356][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.356][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.356][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.357][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.358][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.358][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.360][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.360][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.360][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.362][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.362][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.363][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.364][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.364][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.365][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.365][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.365][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.366][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.366][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.368][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.369][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.370][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.371][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.372][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.373][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.374][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.374][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.374][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.377][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.389][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-03 18:22:40.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.396][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-03 18:22:40.396][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.397][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.398][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-03 18:22:40.399][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.399][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.399][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.403][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.404][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.406][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.406][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.408][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.408][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.409][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.410][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.410][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.411][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.416][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.417][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.418][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.418][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.419][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.419][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.419][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.420][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.420][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.422][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.424][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.424][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.424][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.425][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.426][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.426][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.427][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.427][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.428][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.428][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.429][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.429][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.441][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-03 18:22:40.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.448][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-03 18:22:40.448][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.449][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.450][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-03 18:22:40.451][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.451][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.451][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.459][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.459][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.460][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.461][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.462][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.462][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.464][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.464][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.466][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.466][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.467][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.468][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.469][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.469][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.469][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.471][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.471][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.472][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.472][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.473][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.473][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.474][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.474][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.475][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.476][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.477][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.477][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.479][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.479][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.481][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.482][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.482][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.483][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.485][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.498][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-03 18:22:40.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:40.507][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:40.508][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:40.509][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:40.509][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.517][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.519][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.529][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.537][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.553][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.554][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.574][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.623][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.630][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:40.683][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:40.684][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:40.685][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-03 18:22:40.685][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:40.686][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:40.687][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:40.688][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-03 18:22:40.689][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:40.693][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-03 18:22:40.693][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.694][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.695][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-03 18:22:40.698][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.699][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.704][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.705][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.705][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.707][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.707][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.707][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.708][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.709][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.709][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.710][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.711][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.712][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.712][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.714][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.714][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.716][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.717][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.718][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.718][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.719][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.720][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.721][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.721][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.722][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.723][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.723][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.724][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.725][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.725][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.726][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.727][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.727][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.728][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.743][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-03 18:22:40.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.749][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.756][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[2025-09-03 18:22:40.757][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-03 18:22:40.757][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:40.757][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:40.759][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-03 18:22:40.759][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.760][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:40.760][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:40.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.764][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.764][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.766][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.767][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.767][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:40.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:40.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.769][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.769][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.769][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.770][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:40.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.771][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.771][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:40.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:40.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.773][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.776][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.777][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:40.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.779][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.779][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:40.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.780][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.780][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.781][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.781][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.781][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:40.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:40.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.783][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.783][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.783][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.785][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.785][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.786][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.786][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:40.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:40.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.787][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.787][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.788][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.788][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:40.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:40.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.790][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.790][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.791][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:40.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:40.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:40.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.801][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:40.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:40.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.804][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-03 18:22:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:40.814][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:40.815][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:40.819][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:40.819][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.837][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.864][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.872][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.876][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.878][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.897][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.899][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.907][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.908][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.914][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.926][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.929][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.931][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.959][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:40.974][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:40.986][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:40.987][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:40.988][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 18:22:40.989][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:40.993][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:40.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:40.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:40.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:40.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:40.996][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:40.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:40.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.998][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:40.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:40.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:40.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.000][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.025][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.045][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.069][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.083][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.092][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.098][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.134][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.152][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:41.158][biodb::testThat]
biodb.INFO [2025-09-03 18:22:41.159][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-03 18:22:41.159][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:41.159][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:41.160][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 18:22:41.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 18:22:41.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:41.171][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.172][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.172][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 18:22:41.173][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.173][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:41.180][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.181][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.181][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 18:22:41.182][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.197][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 18:22:41.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.204][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.204][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.204][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.205][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.205][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.206][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.206][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.207][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.207][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.207][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.208][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.208][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.215][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 18:22:41.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.221][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.221][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.221][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.221][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.222][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.222][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.223][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.224][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.224][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.224][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.224][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.225][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.225][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.229][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 18:22:41.229][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.238][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.238][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.238][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.238][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.239][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.241][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.242][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.242][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.242][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.243][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.246][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 18:22:41.246][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 18:22:41.247][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 18:22:41.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:41.278][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.279][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.280][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 18:22:41.280][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:41.281][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.282][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.283][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 18:22:41.284][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.316][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 18:22:41.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.330][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.331][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.331][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.331][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.332][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.332][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.332][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.334][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.334][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.334][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.335][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.335][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.339][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 18:22:41.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.383][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.383][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.383][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.384][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.384][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.385][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.386][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.390][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.390][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.390][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.391][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.391][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.395][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 18:22:41.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.401][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.401][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.401][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.402][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.402][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.402][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.403][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.403][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.403][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.406][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.407][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.408][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.408][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.409][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.412][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 18:22:41.412][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 18:22:41.413][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 18:22:41.416][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:41.418][biodb::testThat]
biodb.INFO [2025-09-03 18:22:41.418][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-03 18:22:41.419][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:41.419][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:41.420][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 18:22:41.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 18:22:41.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:41.430][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.430][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.431][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 18:22:41.431][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.438][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:41.439][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.440][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.441][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 18:22:41.441][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.458][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 18:22:41.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.464][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.464][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.464][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.464][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.465][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.465][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.466][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.467][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.467][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.467][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.468][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.468][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.472][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 18:22:41.472][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.478][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.478][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.478][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.479][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.479][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.479][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.484][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.486][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.486][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.490][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 18:22:41.490][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.496][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.496][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.496][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.497][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.497][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.497][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.497][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.498][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.498][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.499][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.499][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.500][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.501][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.501][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.502][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.504][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 18:22:41.505][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 18:22:41.505][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 18:22:41.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:41.517][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.518][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.518][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 18:22:41.519][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:41.520][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.587][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.588][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 18:22:41.588][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.596][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.598][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.604][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.608][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 18:22:41.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.613][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.614][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.614][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.614][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.614][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.615][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.615][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.616][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.616][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.616][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.617][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.617][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.617][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.618][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.618][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.618][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.622][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 18:22:41.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.625][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.TRACE[2025-09-03 18:22:41.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.628][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.628][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.628][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.629][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.629][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.629][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.630][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.630][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.631][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.631][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.632][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.632][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.633][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.633][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.637][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 18:22:41.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.642][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.644][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.644][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.644][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.644][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.645][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.647][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.647][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.647][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.648][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.648][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.649][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.652][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 18:22:41.653][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 18:22:41.653][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 18:22:41.656][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:41.659][biodb::testThat]
biodb.INFO [2025-09-03 18:22:41.659][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-03 18:22:41.660][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:41.660][biodb::testThat]
biodb.TRACE[2025-09-03 18:22:41.661][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 18:22:41.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 18:22:41.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:41.673][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.674][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.675][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 18:22:41.675][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 18:22:41.685][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.686][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.686][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 18:22:41.687][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.690][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.691][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.700][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 18:22:41.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.706][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.707][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.707][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.708][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.708][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.709][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.709][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.710][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.710][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.711][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.711][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.714][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 18:22:41.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.718][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.721][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.721][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.721][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.722][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.723][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.724][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.724][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.725][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.725][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.729][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 18:22:41.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.734][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.735][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.735][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.735][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.736][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.736][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.736][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.737][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.737][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.738][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.738][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.739][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.739][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.742][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 18:22:41.743][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 18:22:41.743][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 18:22:41.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.755][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:41.759][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.760][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.760][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 18:22:41.761][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:41.761][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:41.762][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:41.763][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 18:22:41.763][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.767][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.785][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 18:22:41.786][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.788][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.791][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.791][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.791][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.792][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.793][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.793][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.794][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.794][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.794][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.794][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.795][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.798][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.799][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 18:22:41.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.805][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.805][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.805][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.805][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.806][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.807][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.807][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.808][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.808][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.809][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.809][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.813][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 18:22:41.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.819][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.819][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 18:22:41.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 18:22:41.819][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 18:22:41.820][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.820][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.820][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.821][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.821][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.821][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.822][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.822][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 18:22:41.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.823][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.823][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.823][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 18:22:41.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.827][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 18:22:41.827][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 18:22:41.827][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 18:22:41.834][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 18:22:41.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:41.836][biodb::testThat]
biodb.INFO [2025-09-03 18:22:41.836][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-03 18:22:41.836][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:41.837][biodb::testThat]
biodb.DEBUG[2025-09-03 18:22:41.837][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-03 18:22:41.837][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:41.838][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:41.839][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-03 18:22:41.839][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.840][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:41.840][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:41.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.845][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.846][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.846][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.847][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.848][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:41.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:41.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.849][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:41.850][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:41.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.850][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.850][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:41.851][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:41.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.851][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.852][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.852][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.853][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.853][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.854][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:41.854][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.855][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.855][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.855][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.856][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.856][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:41.856][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:41.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.857][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.857][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:41.857][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:41.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.858][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.858][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:41.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:41.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.862][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.867][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.874][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-03 18:22:41.874][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-03 18:22:41.877][biodb::testThat]
biodb.INFO [2025-09-03 18:22:41.878][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-03 18:22:41.878][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:41.878][biodb::testThat]
biodb.DEBUG[2025-09-03 18:22:41.882][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-03 18:22:41.882][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-03 18:22:41.882][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-03 18:22:41.883][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:41.884][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-03 18:22:41.885][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-03 18:22:41.887][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-03 18:22:41.887][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:41.888][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-03 18:22:41.888][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:41.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.892][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.892][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.893][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.894][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:41.895][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:41.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.895][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.895][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:41.896][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:41.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.897][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:41.897][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:41.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.898][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.898][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.898][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.899][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.899][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:41.900][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.901][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.901][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.901][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.902][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.902][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:41.902][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:41.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.903][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.903][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:41.903][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:41.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.904][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.904][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:41.905][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:41.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.905][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.915][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.917][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.917][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.917][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.919][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:41.919][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:41.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.920][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.920][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:41.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:41.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.921][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:41.921][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:41.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.922][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:41.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:41.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.923][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:41.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:41.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:41.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:41.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.926][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.926][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.927][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.928][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.928][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.928][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.929][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.930][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:41.930][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.932][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.934][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:41.934][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:41.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:41.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:41.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.936][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:41.936][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:41.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.937][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.937][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:41.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:41.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.938][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:41.939][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:41.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.939][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:41.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:41.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:41.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:41.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:41.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:41.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:41.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:41.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:41.954][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.954][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.955][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.956][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:41.956][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:41.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.957][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.957][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:41.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:41.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.958][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:41.958][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:41.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.959][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:41.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:41.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:41.960][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:41.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.961][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:41.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:41.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.962][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.963][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.963][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:41.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.964][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.965][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.965][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.965][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:41.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.966][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:41.967][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.967][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:41.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:41.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.969][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.969][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:41.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:41.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.971][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.972][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:41.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.973][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:41.973][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:41.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.973][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:41.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:41.975][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:41.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.976][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.976][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:41.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:41.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:41.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:41.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:41.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:41.993][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-03 18:22:41.993][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-03 18:22:41.994][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-03 18:22:41.998][biodb::testThat]
biodb.INFO [2025-09-03 18:22:41.998][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-03 18:22:41.999][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:41.999][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.006][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.007][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-03 18:22:42.007][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.007][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.010][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.010][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-03 18:22:42.010][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.011][biodb::testThat]
sched.DEBUG[2025-09-03 18:22:42.011][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:42.012][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.014][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-03 18:22:42.015][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-03 18:22:42.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:42.019][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:42.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.019][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.020][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:42.020][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:42.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.021][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 18:22:42.021][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.021][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-03 18:22:42.022][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.022][biodb::testThat]
biodb.ERROR[2025-09-03 18:22:42.026][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-03 18:22:42.032][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-03 18:22:42.036][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 18:22:42.036][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 18:22:42.037][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 18:22:42.037][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.037][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.038][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 18:22:42.044][biodb::testContext]
biodb.INFO [2025-09-03 18:22:42.044][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:42.044][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-03 18:22:42.045][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:42.045][biodb::testContext]
biodb.INFO [2025-09-03 18:22:42.046][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:42.046][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:42.048][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.048][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 18:22:42.048][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.049][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[2025-09-03 18:22:42.049][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 18:22:42.050][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.050][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 18:22:42.051][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.052][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 18:22:42.052][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 18:22:42.052][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.053][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 18:22:42.053][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 18:22:42.054][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.055][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 18:22:42.055][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.056][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 18:22:42.056][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 18:22:42.056][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 18:22:42.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.057][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 18:22:42.057][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.058][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.058][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 18:22:42.059][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 18:22:42.059][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.060][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:42.060][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 18:22:42.060][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 18:22:42.061][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 18:22:42.061][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 18:22:42.061][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 18:22:42.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.062][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 18:22:42.062][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 18:22:42.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.063][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 18:22:42.064][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 18:22:42.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.064][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 18:22:42.065][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.066][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 18:22:42.066][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 18:22:42.066][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 18:22:42.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.067][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:42.067][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 18:22:42.072][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 18:22:42.073][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.074][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 18:22:42.074][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 18:22:42.074][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 18:22:42.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.076][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 18:22:42.076][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.076][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-03 18:22:42.077][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.077][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.078][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.078][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.078][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.079][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.079][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:42.079][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.080][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.080][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 18:22:42.080][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.080][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:42.081][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.082][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.082][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.082][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.083][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.083][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.083][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.084][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.084][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.084][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.084][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.085][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 18:22:42.085][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.086][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:42.086][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.086][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.086][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.087][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.087][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.087][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.087][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:42.088][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.088][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.088][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 18:22:42.088][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:42.089][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:42.090][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.090][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.090][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.090][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.091][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.091][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.091][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.092][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.092][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.092][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.092][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.093][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 18:22:42.094][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.094][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-03 18:22:42.094][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.095][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.095][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.095][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.095][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.096][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.096][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:42.096][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.097][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.097][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 18:22:42.097][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.097][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.098][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.098][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.098][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.099][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.099][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.099][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.100][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.100][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.100][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.100][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.101][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.101][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.101][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 18:22:42.102][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.102][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:42.102][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.103][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.103][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.103][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.103][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.104][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.104][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:42.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.105][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.105][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 18:22:42.105][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.105][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.106][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.106][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.106][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.106][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.107][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.107][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.108][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.108][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.108][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.108][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.109][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.109][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.109][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.109][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.110][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.114][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.DEBUG[2025-09-03 18:22:42.115][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.125][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.131][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 18:22:42.132][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 18:22:42.132][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 18:22:42.132][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 18:22:42.133][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:42.133][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 18:22:42.133][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:42.134][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:42.134][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 18:22:42.135][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 18:22:42.135][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:42.135][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 18:22:42.136][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:42.136][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:42.136][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 18:22:42.137][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 18:22:42.137][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 18:22:42.137][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 18:22:42.138][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:42.138][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 18:22:42.139][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 18:22:42.139][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 18:22:42.139][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 18:22:42.140][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 18:22:42.140][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 18:22:42.141][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 18:22:42.141][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 18:22:42.142][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 18:22:42.142][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 18:22:42.142][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 18:22:42.143][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 18:22:42.143][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 18:22:42.144][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 18:22:42.144][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 18:22:42.144][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 18:22:42.145][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 18:22:42.145][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 18:22:42.145][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 18:22:42.146][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 18:22:42.146][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 18:22:42.147][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 18:22:42.147][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 18:22:42.147][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 18:22:42.148][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 18:22:42.148][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 18:22:42.148][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 18:22:42.149][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 18:22:42.149][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 18:22:42.149][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 18:22:42.150][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 18:22:42.150][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 18:22:42.151][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 18:22:42.151][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 18:22:42.151][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 18:22:42.152][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 18:22:42.152][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 18:22:42.152][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 18:22:42.153][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 18:22:42.153][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 18:22:42.153][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 18:22:42.154][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 18:22:42.154][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 18:22:42.155][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 18:22:42.155][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 18:22:42.155][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 18:22:42.156][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 18:22:42.156][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:42.156][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:42.157][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 18:22:42.157][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 18:22:42.157][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 18:22:42.158][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 18:22:42.158][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 18:22:42.159][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 18:22:42.159][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 18:22:42.159][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 18:22:42.160][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 18:22:42.160][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 18:22:42.160][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 18:22:42.161][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 18:22:42.161][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 18:22:42.162][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 18:22:42.162][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 18:22:42.162][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 18:22:42.163][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:42.163][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.164][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.164][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.168][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.169][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.DEBUG[2025-09-03 18:22:42.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.179][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.182][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.DEBUG[2025-09-03 18:22:42.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.191][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:42.191][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 18:22:42.192][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.192][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.192][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.193][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.193][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.193][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.193][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.194][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 18:22:42.194][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 18:22:42.194][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.194][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 18:22:42.195][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 18:22:42.196][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.196][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.196][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.196][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.196][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 18:22:42.196][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.197][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.197][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.197][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.197][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.198][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.198][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 18:22:42.198][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 18:22:42.198][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.198][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.199][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.199][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 18:22:42.199][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 18:22:42.199][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:42.200][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:42.200][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 18:22:42.201][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:42.201][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:42.201][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:42.202][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 18:22:42.204][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 18:22:42.205][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.205][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-03 18:22:42.205][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.206][biodb::testThat]
sched.DEBUG[2025-09-03 18:22:42.207][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 18:22:42.207][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.209][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 18:22:42.210][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:42.211][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 [2025-09-03 18:22:42.214][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.215][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 18:22:42.216][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:42.220][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 [2025-09-03 18:22:42.221][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.222][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 18:22:42.222][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.235][FUN] Functions in observer 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[2025-09-03 18:22:42.236][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 [2025-09-03 18:22:42.237][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.238][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 18:22:42.238][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:42.242][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 [2025-09-03 18:22:42.243][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.243][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 18:22:42.244][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.248][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.250][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.250][FUN] Functions in observer 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[2025-09-03 18:22:42.251][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 [2025-09-03 18:22:42.252][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.253][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 18:22:42.253][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.254][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.257][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".
sched.DEBUG[2025-09-03 18:22:42.257][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 [2025-09-03 18:22:42.258][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.259][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 18:22:42.259][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.263][FUN] Functions in observer 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[2025-09-03 18:22:42.263][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 [2025-09-03 18:22:42.264][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.265][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-03 18:22:42.265][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.270][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.INFO [2025-09-03 18:22:42.272][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.272][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-03 18:22:42.272][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.273][biodb::testThat]
sched.DEBUG[2025-09-03 18:22:42.274][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 [2025-09-03 18:22:42.275][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.276][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-03 18:22:42.276][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.277][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 18:22:42.281][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 [2025-09-03 18:22:42.282][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.283][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-03 18:22:42.283][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 18:22:42.289][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 18:22:42.289][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 18:22:42.290][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 18:22:42.291][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.291][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.292][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 18:22:42.293][biodb::testContext]
biodb.INFO [2025-09-03 18:22:42.294][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:42.294][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-03 18:22:42.294][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:42.294][biodb::testContext]
biodb.INFO [2025-09-03 18:22:42.295][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:42.296][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:42.302][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.303][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 18:22:42.303][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.304][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 18:22:42.308][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.309][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 18:22:42.309][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.310][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 18:22:42.310][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 18:22:42.310][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.311][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 18:22:42.312][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 18:22:42.312][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.312][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.314][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 18:22:42.315][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.316][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 18:22:42.316][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 18:22:42.316][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 18:22:42.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.317][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 18:22:42.318][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.319][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 18:22:42.319][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 18:22:42.319][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.320][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:42.320][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 18:22:42.321][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 18:22:42.321][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 18:22:42.321][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 18:22:42.321][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 18:22:42.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.322][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 18:22:42.323][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 18:22:42.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.324][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 18:22:42.324][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 18:22:42.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.325][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[2025-09-03 18:22:42.325][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 18:22:42.325][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.326][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 18:22:42.326][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 18:22:42.327][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 18:22:42.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.327][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[2025-09-03 18:22:42.327][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:42.328][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 18:22:42.337][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 18:22:42.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.339][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 18:22:42.339][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 18:22:42.339][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 18:22:42.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.340][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[2025-09-03 18:22:42.340][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 18:22:42.341][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.341][self$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[2025-09-03 18:22:42.341][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.342][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.342][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.342][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.343][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.343][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.343][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:42.343][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.344][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.344][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 18:22:42.344][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.344][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:42.345][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.346][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.346][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.347][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.347][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.348][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.348][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.348][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.348][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.349][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 18:22:42.349][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.350][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:42.350][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.350][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.351][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.351][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.351][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.351][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.352][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:42.352][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.353][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.354][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 18:22:42.354][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.354][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.356][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.356][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.357][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.357][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.357][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.357][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.358][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.358][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.358][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 18:22:42.359][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.359][self$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[2025-09-03 18:22:42.359][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.360][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.360][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.360][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.360][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.361][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.361][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:42.361][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.361][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.362][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 18:22:42.362][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.362][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.363][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.363][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.363][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.363][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.364][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.364][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.364][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.364][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.365][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.365][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.365][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.365][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.366][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.366][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 18:22:42.367][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.367][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:42.367][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.367][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.368][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.368][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.368][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.368][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.369][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:42.369][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.369][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.369][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 18:22:42.370][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.370][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.370][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.370][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.371][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.371][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.371][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.371][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.372][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.372][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.372][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.372][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.373][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.373][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.373][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.373][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.374][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.374][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.379][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[2025-09-03 18:22:42.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.380][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[2025-09-03 18:22:42.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.385][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[2025-09-03 18:22:42.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.387][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[2025-09-03 18:22:42.387][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.389][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[2025-09-03 18:22:42.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.390][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[2025-09-03 18:22:42.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.393][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[2025-09-03 18:22:42.393][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 18:22:42.393][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 18:22:42.394][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 18:22:42.394][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 18:22:42.394][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:42.395][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 18:22:42.395][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:42.396][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:42.396][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 18:22:42.396][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 18:22:42.399][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:42.400][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 18:22:42.400][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:42.400][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:42.401][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 18:22:42.401][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 18:22:42.402][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 18:22:42.402][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 18:22:42.402][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:42.403][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 18:22:42.403][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 18:22:42.403][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 18:22:42.404][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 18:22:42.404][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 18:22:42.405][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 18:22:42.405][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 18:22:42.405][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 18:22:42.406][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 18:22:42.406][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 18:22:42.406][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 18:22:42.407][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 18:22:42.407][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 18:22:42.407][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 18:22:42.408][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 18:22:42.408][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 18:22:42.409][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 18:22:42.409][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 18:22:42.409][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 18:22:42.410][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 18:22:42.410][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 18:22:42.410][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 18:22:42.411][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 18:22:42.411][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 18:22:42.411][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 18:22:42.412][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 18:22:42.412][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 18:22:42.413][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 18:22:42.413][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 18:22:42.413][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 18:22:42.414][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 18:22:42.414][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 18:22:42.414][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 18:22:42.415][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 18:22:42.415][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 18:22:42.415][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 18:22:42.416][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 18:22:42.416][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 18:22:42.417][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 18:22:42.417][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 18:22:42.417][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 18:22:42.418][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 18:22:42.418][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 18:22:42.418][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 18:22:42.419][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 18:22:42.419][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 18:22:42.419][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 18:22:42.420][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:42.420][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:42.420][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 18:22:42.421][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 18:22:42.421][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 18:22:42.422][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 18:22:42.422][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 18:22:42.422][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 18:22:42.423][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 18:22:42.423][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 18:22:42.423][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 18:22:42.424][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 18:22:42.424][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 18:22:42.424][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 18:22:42.425][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 18:22:42.425][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 18:22:42.425][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 18:22:42.426][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 18:22:42.426][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:42.427][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.427][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.427][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.436][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[2025-09-03 18:22:42.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.442][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[2025-09-03 18:22:42.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.450][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.454][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:42.455][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 18:22:42.455][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.455][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.456][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.456][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.456][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.456][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.457][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.457][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 18:22:42.457][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 18:22:42.458][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.458][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.458][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 18:22:42.458][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.459][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 18:22:42.460][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.460][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.460][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.461][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.461][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.461][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 18:22:42.461][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 18:22:42.461][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.462][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.462][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.462][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 18:22:42.462][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 18:22:42.463][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:42.463][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:42.463][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 18:22:42.464][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:42.464][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:42.465][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:42.466][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 18:22:42.468][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 18:22:42.468][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.468][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-03 18:22:42.469][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.469][biodb::testThat]
sched.DEBUG[2025-09-03 18:22:42.470][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 18:22:42.470][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.472][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 18:22:42.473][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:42.474][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-03 18:22:42.475][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.476][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-03 18:22:42.476][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-03 18:22:42.479][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 18:22:42.479][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 18:22:42.480][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 18:22:42.480][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.480][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.484][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 18:22:42.486][biodb::testContext]
biodb.INFO [2025-09-03 18:22:42.486][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:42.486][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-03 18:22:42.487][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 18:22:42.487][biodb::testContext]
biodb.INFO [2025-09-03 18:22:42.488][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:42.488][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:42.490][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.490][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 18:22:42.490][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.491][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[2025-09-03 18:22:42.491][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 18:22:42.492][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.493][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 18:22:42.493][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.494][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 18:22:42.494][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 18:22:42.494][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.495][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 18:22:42.496][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 18:22:42.496][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.497][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 18:22:42.497][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.498][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 18:22:42.498][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 18:22:42.498][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 18:22:42.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.499][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 18:22:42.500][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.501][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 18:22:42.501][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 18:22:42.501][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 18:22:42.501][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.502][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:42.502][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 18:22:42.503][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 18:22:42.503][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 18:22:42.503][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 18:22:42.503][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 18:22:42.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.504][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 18:22:42.505][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 18:22:42.505][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.506][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 18:22:42.506][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 18:22:42.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.507][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 18:22:42.507][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 18:22:42.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.508][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 18:22:42.508][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 18:22:42.508][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 18:22:42.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.509][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 18:22:42.510][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 18:22:42.515][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 18:22:42.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.516][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[2025-09-03 18:22:42.517][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 18:22:42.517][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 18:22:42.517][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 18:22:42.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.518][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 18:22:42.519][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.519][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-03 18:22:42.519][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.520][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.520][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.520][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.520][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.521][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.521][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:42.521][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.521][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.522][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 18:22:42.522][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.522][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.523][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.524][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.524][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.525][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.525][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.525][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.525][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.526][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.526][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.526][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 18:22:42.527][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.527][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:42.527][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.528][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.528][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.528][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.529][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.529][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:42.529][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.529][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.530][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 18:22:42.530][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.530][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.530][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.531][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.532][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.532][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.532][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.533][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.533][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.533][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.533][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.533][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.534][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.534][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 18:22:42.535][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.535][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-03 18:22:42.535][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.535][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.536][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.536][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.537][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.537][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 18:22:42.537][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.537][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.538][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 18:22:42.538][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.538][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.538][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.539][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.539][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.539][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.540][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.540][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.540][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.540][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.541][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.541][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.541][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.542][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.542][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 18:22:42.542][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.543][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 18:22:42.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.543][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.543][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.544][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.544][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.544][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 18:22:42.545][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.545][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.545][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 18:22:42.546][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.546][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.546][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.546][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.547][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 18:22:42.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.547][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.547][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.548][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.548][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.548][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.548][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.549][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.549][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.549][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 18:22:42.550][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.550][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.555][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.564][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.DEBUG[2025-09-03 18:22:42.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.570][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[2025-09-03 18:22:42.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.571][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[2025-09-03 18:22:42.572][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 18:22:42.573][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 18:22:42.573][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 18:22:42.574][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 18:22:42.574][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:42.574][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 18:22:42.575][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:42.575][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:42.576][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 18:22:42.576][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 18:22:42.576][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:42.577][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 18:22:42.577][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 18:22:42.577][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 18:22:42.578][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 18:22:42.578][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 18:22:42.579][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 18:22:42.579][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 18:22:42.579][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:42.580][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 18:22:42.580][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 18:22:42.580][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 18:22:42.581][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 18:22:42.581][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 18:22:42.582][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 18:22:42.582][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 18:22:42.582][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 18:22:42.583][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 18:22:42.583][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 18:22:42.583][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 18:22:42.584][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 18:22:42.584][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 18:22:42.584][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 18:22:42.585][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 18:22:42.585][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 18:22:42.586][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 18:22:42.586][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 18:22:42.586][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 18:22:42.587][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 18:22:42.587][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 18:22:42.587][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 18:22:42.588][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 18:22:42.588][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 18:22:42.588][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 18:22:42.589][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 18:22:42.589][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 18:22:42.590][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 18:22:42.590][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 18:22:42.590][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 18:22:42.591][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 18:22:42.591][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 18:22:42.591][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 18:22:42.592][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 18:22:42.592][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 18:22:42.592][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 18:22:42.593][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 18:22:42.593][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 18:22:42.594][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 18:22:42.594][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 18:22:42.594][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 18:22:42.595][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 18:22:42.595][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 18:22:42.596][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 18:22:42.596][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 18:22:42.596][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 18:22:42.597][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 18:22:42.597][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:42.597][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:42.598][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 18:22:42.598][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 18:22:42.599][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 18:22:42.599][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 18:22:42.599][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 18:22:42.600][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 18:22:42.600][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 18:22:42.601][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 18:22:42.601][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 18:22:42.601][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 18:22:42.602][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 18:22:42.602][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 18:22:42.603][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 18:22:42.603][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 18:22:42.603][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 18:22:42.604][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 18:22:42.604][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 18:22:42.605][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 18:22:42.605][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.605][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.618][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[2025-09-03 18:22:42.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.620][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[2025-09-03 18:22:42.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.621][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".
biodb.DEBUG[2025-09-03 18:22:42.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.623][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[2025-09-03 18:22:42.623][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.625][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[2025-09-03 18:22:42.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.626][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[2025-09-03 18:22:42.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.628][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[2025-09-03 18:22:42.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.630][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[2025-09-03 18:22:42.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 18:22:42.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 18:22:42.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.633][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[2025-09-03 18:22:42.634][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 18:22:42.634][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 18:22:42.635][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.635][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.636][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.636][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 18:22:42.636][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.636][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.637][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.637][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 18:22:42.637][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 18:22:42.637][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 18:22:42.638][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.638][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 18:22:42.638][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 18:22:42.639][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 18:22:42.640][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.640][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 18:22:42.640][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 18:22:42.641][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 18:22:42.641][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 18:22:42.641][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 18:22:42.641][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 18:22:42.641][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 18:22:42.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 18:22:42.642][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 18:22:42.642][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 18:22:42.642][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 18:22:42.643][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 18:22:42.643][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 18:22:42.644][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 18:22:42.644][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 18:22:42.644][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 18:22:42.645][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 18:22:42.646][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 18:22:42.648][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 18:22:42.648][biodb::testThat]
biodb.INFO [2025-09-03 18:22:42.648][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-03 18:22:42.649][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 18:22:42.651][biodb::testThat]
sched.DEBUG[2025-09-03 18:22:42.652][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 18:22:42.653][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.655][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 18:22:42.655][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 18:22:42.656][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 [2025-09-03 18:22:42.657][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-09-03 18:22:42.658][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-03 18:22:42.658][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.659][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-03 18:22:42.664][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 18:22:42.665][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 18:22:42.668][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-03 18:22:42.669][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 18:22:42.669][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 18:22:42.669][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 18:22:42.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 18:22:42.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 18:22:42.674][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.675][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.676][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:42.677][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:42.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.677][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.678][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 18:22:42.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 18:22:42.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.679][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:42.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:42.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.679][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.680][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 18:22:42.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 18:22:42.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.681][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 18:22:42.681][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 18:22:42.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.682][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 18:22:42.682][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 18:22:42.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.683][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.683][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:42.683][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:42.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.684][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.684][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:42.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 18:22:42.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.685][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:42.686][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:42.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.686][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.686][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 18:22:42.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 18:22:42.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.688][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:42.688][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:42.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.688][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:42.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 18:22:42.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.690][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:42.690][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:42.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.690][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 18:22:42.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 18:22:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.692][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:42.692][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:42.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.693][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.693][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 18:22:42.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 18:22:42.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.694][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:42.694][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:42.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.695][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.695][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 18:22:42.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 18:22:42.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:42.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:42.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:42.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 18:22:42.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 18:22:42.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 18:22:42.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 18:22:42.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 18:22:42.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 18:22:42.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 18:22:42.707][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-03 18:22:42.708][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 18:22:42.709][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 18:22:42.709][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 18:22:42.709][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 18:22:42.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 18:22:42.709][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 18:22:42.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 18:22:42.710][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 18:22:42.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
  4.509   0.268   7.638

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.6650.2290.970
ChebiEntry0.0840.0080.092